-- dump date 20140618_193346 -- class Genbank::misc_feature -- table misc_feature_note -- id note 311402000001 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 311402000002 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 311402000003 DNA binding residues [nucleotide binding] 311402000004 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402000005 P-loop; other site 311402000006 Magnesium ion binding site [ion binding]; other site 311402000007 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402000008 Magnesium ion binding site [ion binding]; other site 311402000009 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 311402000010 ParB-like nuclease domain; Region: ParBc; pfam02195 311402000011 replication initiation protein RepC; Provisional; Region: PRK13824 311402000012 Replication protein C N-terminal domain; Region: RP-C; pfam03428 311402000013 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 311402000014 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 311402000015 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 311402000016 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 311402000017 binding surface 311402000018 TPR motif; other site 311402000019 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402000020 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402000021 metal binding site [ion binding]; metal-binding site 311402000022 active site 311402000023 I-site; other site 311402000024 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 311402000025 DNA binding site [nucleotide binding] 311402000026 dimer interface [polypeptide binding]; other site 311402000027 Int/Topo IB signature motif; other site 311402000028 active site 311402000029 Cupin domain; Region: Cupin_2; pfam07883 311402000030 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 311402000031 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 311402000032 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402000033 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 311402000034 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 311402000035 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 311402000036 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 311402000037 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 311402000038 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402000039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000040 dimer interface [polypeptide binding]; other site 311402000041 conserved gate region; other site 311402000042 putative PBP binding loops; other site 311402000043 ABC-ATPase subunit interface; other site 311402000044 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402000045 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000046 dimer interface [polypeptide binding]; other site 311402000047 conserved gate region; other site 311402000048 putative PBP binding loops; other site 311402000049 ABC-ATPase subunit interface; other site 311402000050 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402000051 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000052 Walker A/P-loop; other site 311402000053 ATP binding site [chemical binding]; other site 311402000054 Q-loop/lid; other site 311402000055 ABC transporter signature motif; other site 311402000056 Walker B; other site 311402000057 D-loop; other site 311402000058 H-loop/switch region; other site 311402000059 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402000060 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 311402000061 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000062 Walker A/P-loop; other site 311402000063 ATP binding site [chemical binding]; other site 311402000064 Q-loop/lid; other site 311402000065 ABC transporter signature motif; other site 311402000066 Walker B; other site 311402000067 D-loop; other site 311402000068 H-loop/switch region; other site 311402000069 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402000070 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 311402000071 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 311402000072 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 311402000073 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000074 Walker A/P-loop; other site 311402000075 ATP binding site [chemical binding]; other site 311402000076 Q-loop/lid; other site 311402000077 ABC transporter signature motif; other site 311402000078 Walker B; other site 311402000079 D-loop; other site 311402000080 H-loop/switch region; other site 311402000081 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402000082 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 311402000083 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000084 Walker A/P-loop; other site 311402000085 ATP binding site [chemical binding]; other site 311402000086 Q-loop/lid; other site 311402000087 ABC transporter signature motif; other site 311402000088 Walker B; other site 311402000089 D-loop; other site 311402000090 H-loop/switch region; other site 311402000091 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402000092 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 311402000093 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402000094 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000095 dimer interface [polypeptide binding]; other site 311402000096 conserved gate region; other site 311402000097 putative PBP binding loops; other site 311402000098 ABC-ATPase subunit interface; other site 311402000099 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 311402000100 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000101 dimer interface [polypeptide binding]; other site 311402000102 conserved gate region; other site 311402000103 putative PBP binding loops; other site 311402000104 ABC-ATPase subunit interface; other site 311402000105 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 311402000106 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 311402000107 peptide binding site [polypeptide binding]; other site 311402000108 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402000109 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402000110 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 311402000111 Divergent AAA domain; Region: AAA_4; pfam04326 311402000112 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 311402000113 plasmid partitioning protein; Provisional; Region: PRK13832 311402000114 ParB-like nuclease domain; Region: ParB; smart00470 311402000115 short chain dehydrogenase; Provisional; Region: PRK06180 311402000116 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 311402000117 NADP binding site [chemical binding]; other site 311402000118 active site 311402000119 steroid binding site; other site 311402000120 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 311402000121 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402000122 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402000123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402000124 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 311402000125 IHF dimer interface [polypeptide binding]; other site 311402000126 IHF - DNA interface [nucleotide binding]; other site 311402000127 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402000128 Transposase; Region: HTH_Tnp_1; pfam01527 311402000129 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402000130 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402000131 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402000132 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 311402000133 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402000134 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 311402000135 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 311402000136 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 311402000137 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 311402000138 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 311402000139 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 311402000140 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 311402000141 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 311402000142 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 311402000143 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311402000144 Walker A motif; other site 311402000145 ATP binding site [chemical binding]; other site 311402000146 Walker B motif; other site 311402000147 conjugal transfer protein TraD; Provisional; Region: PRK13847 311402000148 conjugal transfer protein TraC; Provisional; Region: PRK13848 311402000149 Dtr system oriT relaxase; Provisional; Region: PRK13826 311402000150 MobA/MobL family; Region: MobA_MobL; pfam03389 311402000151 AAA domain; Region: AAA_30; pfam13604 311402000152 Family description; Region: UvrD_C_2; pfam13538 311402000153 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 311402000154 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 311402000155 conjugal transfer protein TraB; Provisional; Region: PRK13825 311402000156 conjugal transfer protein TraH; Provisional; Region: PRK13843 311402000157 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 311402000158 Helix-turn-helix domain; Region: HTH_18; pfam12833 311402000159 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311402000160 EamA-like transporter family; Region: EamA; pfam00892 311402000161 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402000162 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402000163 non-specific DNA binding site [nucleotide binding]; other site 311402000164 salt bridge; other site 311402000165 sequence-specific DNA binding site [nucleotide binding]; other site 311402000166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402000167 Integrase core domain; Region: rve; pfam00665 311402000168 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 311402000169 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402000170 putative substrate translocation pore; other site 311402000171 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 311402000172 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 311402000173 NAD(P) binding site [chemical binding]; other site 311402000174 hypothetical protein; Validated; Region: PRK06201 311402000175 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 311402000176 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 311402000177 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 311402000178 ligand binding site [chemical binding]; other site 311402000179 NAD binding site [chemical binding]; other site 311402000180 dimerization interface [polypeptide binding]; other site 311402000181 catalytic site [active] 311402000182 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 311402000183 Transcriptional regulator [Transcription]; Region: IclR; COG1414 311402000184 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402000185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 311402000186 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 311402000187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 311402000188 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 311402000189 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 311402000190 phosphate binding site [ion binding]; other site 311402000191 DDE domain; Region: DDE_Tnp_IS240; pfam13610 311402000192 Integrase core domain; Region: rve; pfam00665 311402000193 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402000194 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402000195 WHG domain; Region: WHG; pfam13305 311402000196 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 311402000197 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_4; cd06337 311402000198 putative ligand binding site [chemical binding]; other site 311402000199 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402000200 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402000201 Walker A/P-loop; other site 311402000202 ATP binding site [chemical binding]; other site 311402000203 Q-loop/lid; other site 311402000204 ABC transporter signature motif; other site 311402000205 Walker B; other site 311402000206 D-loop; other site 311402000207 H-loop/switch region; other site 311402000208 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 311402000209 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 311402000210 Walker A/P-loop; other site 311402000211 ATP binding site [chemical binding]; other site 311402000212 Q-loop/lid; other site 311402000213 ABC transporter signature motif; other site 311402000214 Walker B; other site 311402000215 D-loop; other site 311402000216 H-loop/switch region; other site 311402000217 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 311402000218 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402000219 TM-ABC transporter signature motif; other site 311402000220 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 311402000221 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402000222 TM-ABC transporter signature motif; other site 311402000223 amidase; Provisional; Region: PRK06170 311402000224 Amidase; Region: Amidase; cl11426 311402000225 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 311402000226 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402000227 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 311402000228 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 311402000229 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402000230 L-asparaginase II; Region: Asparaginase_II; cl01842 311402000231 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402000232 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 311402000233 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 311402000234 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 311402000235 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 311402000236 conserved cys residue [active] 311402000237 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 311402000238 active site 311402000239 metal-binding site 311402000240 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402000241 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 311402000242 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 311402000243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402000244 Integrase core domain; Region: rve; pfam00665 311402000245 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402000246 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 311402000247 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402000248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402000249 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402000250 dimerization interface [polypeptide binding]; other site 311402000251 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402000252 H+ Antiporter protein; Region: 2A0121; TIGR00900 311402000253 putative substrate translocation pore; other site 311402000254 Predicted amidohydrolase [General function prediction only]; Region: COG0388 311402000255 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 311402000256 active site 311402000257 catalytic triad [active] 311402000258 dimer interface [polypeptide binding]; other site 311402000259 Isochorismatase family; Region: Isochorismatase; pfam00857 311402000260 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 311402000261 catalytic triad [active] 311402000262 conserved cis-peptide bond; other site 311402000263 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 311402000264 pyrimidine utilization protein A; Region: RutA; TIGR03612 311402000265 active site 311402000266 dimer interface [polypeptide binding]; other site 311402000267 non-prolyl cis peptide bond; other site 311402000268 insertion regions; other site 311402000269 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 311402000270 Amidase; Region: Amidase; cl11426 311402000271 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 311402000272 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402000273 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 311402000274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000275 dimer interface [polypeptide binding]; other site 311402000276 conserved gate region; other site 311402000277 putative PBP binding loops; other site 311402000278 ABC-ATPase subunit interface; other site 311402000279 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402000280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000281 dimer interface [polypeptide binding]; other site 311402000282 conserved gate region; other site 311402000283 putative PBP binding loops; other site 311402000284 ABC-ATPase subunit interface; other site 311402000285 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402000286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402000287 Walker A/P-loop; other site 311402000288 ATP binding site [chemical binding]; other site 311402000289 Q-loop/lid; other site 311402000290 ABC transporter signature motif; other site 311402000291 Walker B; other site 311402000292 D-loop; other site 311402000293 H-loop/switch region; other site 311402000294 Winged helix-turn helix; Region: HTH_29; pfam13551 311402000295 Integrase core domain; Region: rve; pfam00665 311402000296 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 311402000297 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 311402000298 SnoaL-like domain; Region: SnoaL_2; pfam12680 311402000299 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 311402000300 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 311402000301 ligand binding site [chemical binding]; other site 311402000302 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402000303 DDE domain; Region: DDE_Tnp_IS240; pfam13610 311402000304 Integrase core domain; Region: rve; pfam00665 311402000305 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 311402000306 Cytochrome P450; Region: p450; cl12078 311402000307 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402000308 S-adenosylmethionine binding site [chemical binding]; other site 311402000309 sulfotransferase; Region: PLN02164 311402000310 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 311402000311 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 311402000312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402000313 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402000314 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402000315 active site 311402000316 non-prolyl cis peptide bond; other site 311402000317 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402000318 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 311402000319 Walker A/P-loop; other site 311402000320 ATP binding site [chemical binding]; other site 311402000321 Q-loop/lid; other site 311402000322 ABC transporter signature motif; other site 311402000323 Walker B; other site 311402000324 D-loop; other site 311402000325 H-loop/switch region; other site 311402000326 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 311402000327 TM-ABC transporter signature motif; other site 311402000328 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 311402000329 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 311402000330 TM-ABC transporter signature motif; other site 311402000331 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 311402000332 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 311402000333 putative ligand binding site [chemical binding]; other site 311402000334 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 311402000335 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 311402000336 putative ligand binding site [chemical binding]; other site 311402000337 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 311402000338 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 311402000339 Walker A/P-loop; other site 311402000340 ATP binding site [chemical binding]; other site 311402000341 Q-loop/lid; other site 311402000342 ABC transporter signature motif; other site 311402000343 Walker B; other site 311402000344 D-loop; other site 311402000345 H-loop/switch region; other site 311402000346 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 311402000347 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 311402000348 Flavin binding site [chemical binding]; other site 311402000349 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 311402000350 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402000351 substrate binding pocket [chemical binding]; other site 311402000352 membrane-bound complex binding site; other site 311402000353 hinge residues; other site 311402000354 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402000355 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402000356 Walker A/P-loop; other site 311402000357 ATP binding site [chemical binding]; other site 311402000358 Q-loop/lid; other site 311402000359 ABC transporter signature motif; other site 311402000360 Walker B; other site 311402000361 D-loop; other site 311402000362 H-loop/switch region; other site 311402000363 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402000364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000365 putative PBP binding loops; other site 311402000366 dimer interface [polypeptide binding]; other site 311402000367 ABC-ATPase subunit interface; other site 311402000368 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402000369 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 311402000370 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 311402000371 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 311402000372 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 311402000373 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 311402000374 Uncharacterized conserved protein [Function unknown]; Region: COG2128 311402000375 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 311402000376 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 311402000377 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 311402000378 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402000379 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000380 Walker A/P-loop; other site 311402000381 ATP binding site [chemical binding]; other site 311402000382 Q-loop/lid; other site 311402000383 ABC transporter signature motif; other site 311402000384 Walker B; other site 311402000385 D-loop; other site 311402000386 H-loop/switch region; other site 311402000387 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000388 Walker A/P-loop; other site 311402000389 ATP binding site [chemical binding]; other site 311402000390 Q-loop/lid; other site 311402000391 ABC transporter signature motif; other site 311402000392 Walker B; other site 311402000393 D-loop; other site 311402000394 H-loop/switch region; other site 311402000395 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402000396 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402000397 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000398 ABC-ATPase subunit interface; other site 311402000399 putative PBP binding loops; other site 311402000400 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402000401 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000402 dimer interface [polypeptide binding]; other site 311402000403 conserved gate region; other site 311402000404 putative PBP binding loops; other site 311402000405 ABC-ATPase subunit interface; other site 311402000406 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402000407 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 311402000408 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402000409 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 311402000410 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 311402000411 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 311402000412 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402000413 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 311402000414 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402000415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000416 dimer interface [polypeptide binding]; other site 311402000417 conserved gate region; other site 311402000418 ABC-ATPase subunit interface; other site 311402000419 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402000420 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000421 dimer interface [polypeptide binding]; other site 311402000422 conserved gate region; other site 311402000423 putative PBP binding loops; other site 311402000424 ABC-ATPase subunit interface; other site 311402000425 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402000426 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000427 Walker A/P-loop; other site 311402000428 ATP binding site [chemical binding]; other site 311402000429 Q-loop/lid; other site 311402000430 ABC transporter signature motif; other site 311402000431 Walker B; other site 311402000432 D-loop; other site 311402000433 H-loop/switch region; other site 311402000434 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402000435 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 311402000436 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000437 Walker A/P-loop; other site 311402000438 ATP binding site [chemical binding]; other site 311402000439 Q-loop/lid; other site 311402000440 ABC transporter signature motif; other site 311402000441 Walker B; other site 311402000442 D-loop; other site 311402000443 H-loop/switch region; other site 311402000444 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402000445 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402000446 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402000447 active site 311402000448 catalytic tetrad [active] 311402000449 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 311402000450 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 311402000451 Flavin binding site [chemical binding]; other site 311402000452 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 311402000453 dimer interface [polypeptide binding]; other site 311402000454 FMN binding site [chemical binding]; other site 311402000455 NADPH bind site [chemical binding]; other site 311402000456 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402000457 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000458 Walker A/P-loop; other site 311402000459 ATP binding site [chemical binding]; other site 311402000460 Q-loop/lid; other site 311402000461 ABC transporter signature motif; other site 311402000462 Walker B; other site 311402000463 D-loop; other site 311402000464 H-loop/switch region; other site 311402000465 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 311402000466 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000467 Walker A/P-loop; other site 311402000468 ATP binding site [chemical binding]; other site 311402000469 Q-loop/lid; other site 311402000470 ABC transporter signature motif; other site 311402000471 Walker B; other site 311402000472 D-loop; other site 311402000473 H-loop/switch region; other site 311402000474 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402000475 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 311402000476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000477 dimer interface [polypeptide binding]; other site 311402000478 conserved gate region; other site 311402000479 putative PBP binding loops; other site 311402000480 ABC-ATPase subunit interface; other site 311402000481 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402000482 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000483 dimer interface [polypeptide binding]; other site 311402000484 conserved gate region; other site 311402000485 putative PBP binding loops; other site 311402000486 ABC-ATPase subunit interface; other site 311402000487 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 311402000488 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402000489 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402000490 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402000491 active site 311402000492 non-prolyl cis peptide bond; other site 311402000493 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402000494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000495 dimer interface [polypeptide binding]; other site 311402000496 conserved gate region; other site 311402000497 putative PBP binding loops; other site 311402000498 ABC-ATPase subunit interface; other site 311402000499 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402000500 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000501 dimer interface [polypeptide binding]; other site 311402000502 conserved gate region; other site 311402000503 putative PBP binding loops; other site 311402000504 ABC-ATPase subunit interface; other site 311402000505 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 311402000506 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402000507 substrate binding pocket [chemical binding]; other site 311402000508 membrane-bound complex binding site; other site 311402000509 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402000510 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402000511 Walker A/P-loop; other site 311402000512 ATP binding site [chemical binding]; other site 311402000513 Q-loop/lid; other site 311402000514 ABC transporter signature motif; other site 311402000515 Walker B; other site 311402000516 D-loop; other site 311402000517 H-loop/switch region; other site 311402000518 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402000519 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402000520 active site 311402000521 non-prolyl cis peptide bond; other site 311402000522 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402000523 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000524 Walker A/P-loop; other site 311402000525 ATP binding site [chemical binding]; other site 311402000526 Q-loop/lid; other site 311402000527 ABC transporter signature motif; other site 311402000528 Walker B; other site 311402000529 D-loop; other site 311402000530 H-loop/switch region; other site 311402000531 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 311402000532 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000533 Walker A/P-loop; other site 311402000534 ATP binding site [chemical binding]; other site 311402000535 Q-loop/lid; other site 311402000536 ABC transporter signature motif; other site 311402000537 Walker B; other site 311402000538 D-loop; other site 311402000539 H-loop/switch region; other site 311402000540 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402000541 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402000542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000543 dimer interface [polypeptide binding]; other site 311402000544 conserved gate region; other site 311402000545 putative PBP binding loops; other site 311402000546 ABC-ATPase subunit interface; other site 311402000547 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402000548 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402000549 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 311402000550 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402000551 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402000552 Coenzyme A binding pocket [chemical binding]; other site 311402000553 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 311402000554 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 311402000555 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402000556 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402000557 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402000558 active site 311402000559 non-prolyl cis peptide bond; other site 311402000560 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402000561 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 311402000562 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 311402000563 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402000564 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 311402000565 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 311402000566 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 311402000567 metal binding site [ion binding]; metal-binding site 311402000568 putative dimer interface [polypeptide binding]; other site 311402000569 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 311402000570 active site 311402000571 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 311402000572 dimer interface [polypeptide binding]; other site 311402000573 non-prolyl cis peptide bond; other site 311402000574 insertion regions; other site 311402000575 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 311402000576 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402000577 substrate binding pocket [chemical binding]; other site 311402000578 membrane-bound complex binding site; other site 311402000579 hinge residues; other site 311402000580 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402000581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000582 dimer interface [polypeptide binding]; other site 311402000583 conserved gate region; other site 311402000584 putative PBP binding loops; other site 311402000585 ABC-ATPase subunit interface; other site 311402000586 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402000587 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402000588 Walker A/P-loop; other site 311402000589 ATP binding site [chemical binding]; other site 311402000590 Q-loop/lid; other site 311402000591 ABC transporter signature motif; other site 311402000592 Walker B; other site 311402000593 D-loop; other site 311402000594 H-loop/switch region; other site 311402000595 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402000596 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402000597 substrate binding pocket [chemical binding]; other site 311402000598 membrane-bound complex binding site; other site 311402000599 hinge residues; other site 311402000600 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402000601 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000602 dimer interface [polypeptide binding]; other site 311402000603 conserved gate region; other site 311402000604 putative PBP binding loops; other site 311402000605 ABC-ATPase subunit interface; other site 311402000606 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402000607 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402000608 Walker A/P-loop; other site 311402000609 ATP binding site [chemical binding]; other site 311402000610 Q-loop/lid; other site 311402000611 ABC transporter signature motif; other site 311402000612 Walker B; other site 311402000613 D-loop; other site 311402000614 H-loop/switch region; other site 311402000615 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 311402000616 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 311402000617 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 311402000618 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 311402000619 Walker A/P-loop; other site 311402000620 ATP binding site [chemical binding]; other site 311402000621 Q-loop/lid; other site 311402000622 ABC transporter signature motif; other site 311402000623 Walker B; other site 311402000624 D-loop; other site 311402000625 H-loop/switch region; other site 311402000626 NIL domain; Region: NIL; cl09633 311402000627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000628 dimer interface [polypeptide binding]; other site 311402000629 conserved gate region; other site 311402000630 ABC-ATPase subunit interface; other site 311402000631 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 311402000632 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 311402000633 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 311402000634 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 311402000635 Walker A/P-loop; other site 311402000636 ATP binding site [chemical binding]; other site 311402000637 Q-loop/lid; other site 311402000638 ABC transporter signature motif; other site 311402000639 Walker B; other site 311402000640 D-loop; other site 311402000641 H-loop/switch region; other site 311402000642 NIL domain; Region: NIL; cl09633 311402000643 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000644 dimer interface [polypeptide binding]; other site 311402000645 conserved gate region; other site 311402000646 ABC-ATPase subunit interface; other site 311402000647 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402000648 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402000649 DNA-binding site [nucleotide binding]; DNA binding site 311402000650 FCD domain; Region: FCD; pfam07729 311402000651 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 311402000652 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402000653 substrate binding pocket [chemical binding]; other site 311402000654 membrane-bound complex binding site; other site 311402000655 hinge residues; other site 311402000656 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402000657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000658 dimer interface [polypeptide binding]; other site 311402000659 conserved gate region; other site 311402000660 putative PBP binding loops; other site 311402000661 ABC-ATPase subunit interface; other site 311402000662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000663 dimer interface [polypeptide binding]; other site 311402000664 conserved gate region; other site 311402000665 putative PBP binding loops; other site 311402000666 ABC-ATPase subunit interface; other site 311402000667 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 311402000668 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 311402000669 putative hydrolase; Provisional; Region: PRK11460 311402000670 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 311402000671 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 311402000672 conserved cys residue [active] 311402000673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402000674 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 311402000675 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 311402000676 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 311402000677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000678 dimer interface [polypeptide binding]; other site 311402000679 conserved gate region; other site 311402000680 ABC-ATPase subunit interface; other site 311402000681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000682 dimer interface [polypeptide binding]; other site 311402000683 conserved gate region; other site 311402000684 putative PBP binding loops; other site 311402000685 ABC-ATPase subunit interface; other site 311402000686 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 311402000687 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 311402000688 Walker A/P-loop; other site 311402000689 ATP binding site [chemical binding]; other site 311402000690 Q-loop/lid; other site 311402000691 ABC transporter signature motif; other site 311402000692 Walker B; other site 311402000693 D-loop; other site 311402000694 H-loop/switch region; other site 311402000695 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 311402000696 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 311402000697 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 311402000698 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402000699 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402000700 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 311402000701 NAD(P) binding site [chemical binding]; other site 311402000702 catalytic residues [active] 311402000703 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 311402000704 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 311402000705 inhibitor site; inhibition site 311402000706 active site 311402000707 dimer interface [polypeptide binding]; other site 311402000708 catalytic residue [active] 311402000709 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402000710 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402000711 DNA-binding site [nucleotide binding]; DNA binding site 311402000712 FCD domain; Region: FCD; pfam07729 311402000713 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402000714 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402000715 DNA-binding site [nucleotide binding]; DNA binding site 311402000716 FCD domain; Region: FCD; pfam07729 311402000717 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402000718 DDE domain; Region: DDE_Tnp_IS240; pfam13610 311402000719 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 311402000720 Phosphotransferase enzyme family; Region: APH; pfam01636 311402000721 active site 311402000722 ATP binding site [chemical binding]; other site 311402000723 substrate binding site [chemical binding]; other site 311402000724 dimer interface [polypeptide binding]; other site 311402000725 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 311402000726 allantoate amidohydrolase; Reviewed; Region: PRK09290 311402000727 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 311402000728 active site 311402000729 metal binding site [ion binding]; metal-binding site 311402000730 dimer interface [polypeptide binding]; other site 311402000731 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 311402000732 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 311402000733 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 311402000734 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402000735 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000736 Walker A/P-loop; other site 311402000737 ATP binding site [chemical binding]; other site 311402000738 Q-loop/lid; other site 311402000739 ABC transporter signature motif; other site 311402000740 Walker B; other site 311402000741 D-loop; other site 311402000742 H-loop/switch region; other site 311402000743 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000744 Walker A/P-loop; other site 311402000745 ATP binding site [chemical binding]; other site 311402000746 Q-loop/lid; other site 311402000747 ABC transporter signature motif; other site 311402000748 Walker B; other site 311402000749 D-loop; other site 311402000750 H-loop/switch region; other site 311402000751 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402000752 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402000753 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000754 dimer interface [polypeptide binding]; other site 311402000755 conserved gate region; other site 311402000756 putative PBP binding loops; other site 311402000757 ABC-ATPase subunit interface; other site 311402000758 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402000759 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000760 dimer interface [polypeptide binding]; other site 311402000761 conserved gate region; other site 311402000762 putative PBP binding loops; other site 311402000763 ABC-ATPase subunit interface; other site 311402000764 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 311402000765 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402000766 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 311402000767 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 311402000768 active site 311402000769 DNA binding site [nucleotide binding] 311402000770 Int/Topo IB signature motif; other site 311402000771 catalytic residues [active] 311402000772 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 311402000773 Autotransporter beta-domain; Region: Autotransporter; pfam03797 311402000774 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 311402000775 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 311402000776 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402000777 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402000778 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 311402000779 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 311402000780 Cu(I) binding site [ion binding]; other site 311402000781 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402000782 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402000783 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402000784 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 311402000785 Protein export membrane protein; Region: SecD_SecF; cl14618 311402000786 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 311402000787 FecR protein; Region: FecR; pfam04773 311402000788 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 311402000789 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 311402000790 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 311402000791 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 311402000792 Walker A/P-loop; other site 311402000793 ATP binding site [chemical binding]; other site 311402000794 Q-loop/lid; other site 311402000795 ABC transporter signature motif; other site 311402000796 Walker B; other site 311402000797 D-loop; other site 311402000798 H-loop/switch region; other site 311402000799 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 311402000800 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402000801 ABC-ATPase subunit interface; other site 311402000802 dimer interface [polypeptide binding]; other site 311402000803 putative PBP binding regions; other site 311402000804 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 311402000805 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402000806 ABC-ATPase subunit interface; other site 311402000807 dimer interface [polypeptide binding]; other site 311402000808 putative PBP binding regions; other site 311402000809 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 311402000810 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 311402000811 siderophore binding site; other site 311402000812 Secretin and TonB N terminus short domain; Region: STN; smart00965 311402000813 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 311402000814 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 311402000815 N-terminal plug; other site 311402000816 ligand-binding site [chemical binding]; other site 311402000817 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 311402000818 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 311402000819 Thioesterase domain; Region: Thioesterase; pfam00975 311402000820 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 311402000821 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402000822 Condensation domain; Region: Condensation; pfam00668 311402000823 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402000824 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 311402000825 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Saframycin A gene cluster from Streptomyces lavendulae; Region: A_NRPS_Sfm_like; cd12115 311402000826 acyl-activating enzyme (AAE) consensus motif; other site 311402000827 AMP binding site [chemical binding]; other site 311402000828 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402000829 Condensation domain; Region: Condensation; pfam00668 311402000830 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402000831 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 311402000832 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Saframycin A gene cluster from Streptomyces lavendulae; Region: A_NRPS_Sfm_like; cd12115 311402000833 acyl-activating enzyme (AAE) consensus motif; other site 311402000834 AMP binding site [chemical binding]; other site 311402000835 Condensation domain; Region: Condensation; pfam00668 311402000836 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 311402000837 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 311402000838 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 311402000839 active site 311402000840 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 311402000841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402000842 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402000843 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 311402000844 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 311402000845 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402000846 catalytic residue [active] 311402000847 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402000848 S-adenosylmethionine binding site [chemical binding]; other site 311402000849 Condensation domain; Region: Condensation; pfam00668 311402000850 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402000851 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 311402000852 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 311402000853 acyl-activating enzyme (AAE) consensus motif; other site 311402000854 AMP binding site [chemical binding]; other site 311402000855 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402000856 thioester reductase domain; Region: Thioester-redct; TIGR01746 311402000857 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 311402000858 putative NAD(P) binding site [chemical binding]; other site 311402000859 active site 311402000860 putative substrate binding site [chemical binding]; other site 311402000861 acyl-CoA synthetase; Validated; Region: PRK05850 311402000862 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 311402000863 acyl-activating enzyme (AAE) consensus motif; other site 311402000864 active site 311402000865 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 311402000866 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 311402000867 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 311402000868 active site 311402000869 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 311402000870 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 311402000871 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 311402000872 putative NADP binding site [chemical binding]; other site 311402000873 active site 311402000874 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402000875 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 311402000876 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 311402000877 Condensation domain; Region: Condensation; pfam00668 311402000878 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402000879 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 311402000880 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 311402000881 acyl-activating enzyme (AAE) consensus motif; other site 311402000882 AMP binding site [chemical binding]; other site 311402000883 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402000884 Condensation domain; Region: Condensation; pfam00668 311402000885 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402000886 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 311402000887 acyl-activating enzyme (AAE) consensus motif; other site 311402000888 AMP binding site [chemical binding]; other site 311402000889 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402000890 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 311402000891 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 311402000892 Predicted transcriptional regulator [Transcription]; Region: COG1959 311402000893 Transcriptional regulator; Region: Rrf2; pfam02082 311402000894 DDE domain; Region: DDE_Tnp_IS240; pfam13610 311402000895 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402000896 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402000897 dimer interface [polypeptide binding]; other site 311402000898 putative CheW interface [polypeptide binding]; other site 311402000899 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 311402000900 catalytic nucleophile [active] 311402000901 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 311402000902 SxDxEG motif; other site 311402000903 active site 311402000904 metal binding site [ion binding]; metal-binding site 311402000905 homopentamer interface [polypeptide binding]; other site 311402000906 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 311402000907 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402000908 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000909 dimer interface [polypeptide binding]; other site 311402000910 conserved gate region; other site 311402000911 putative PBP binding loops; other site 311402000912 ABC-ATPase subunit interface; other site 311402000913 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 311402000914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000915 dimer interface [polypeptide binding]; other site 311402000916 conserved gate region; other site 311402000917 putative PBP binding loops; other site 311402000918 ABC-ATPase subunit interface; other site 311402000919 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 311402000920 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 311402000921 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 311402000922 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000923 Walker A/P-loop; other site 311402000924 ATP binding site [chemical binding]; other site 311402000925 Q-loop/lid; other site 311402000926 ABC transporter signature motif; other site 311402000927 Walker B; other site 311402000928 D-loop; other site 311402000929 H-loop/switch region; other site 311402000930 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402000931 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402000932 Walker A/P-loop; other site 311402000933 ATP binding site [chemical binding]; other site 311402000934 Q-loop/lid; other site 311402000935 ABC transporter signature motif; other site 311402000936 Walker B; other site 311402000937 D-loop; other site 311402000938 H-loop/switch region; other site 311402000939 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402000940 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 311402000941 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 311402000942 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 311402000943 putative active site [active] 311402000944 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402000945 putative Zn2+ binding site [ion binding]; other site 311402000946 putative DNA binding site [nucleotide binding]; other site 311402000947 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 311402000948 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402000949 MarR family; Region: MarR_2; cl17246 311402000950 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402000951 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 311402000952 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 311402000953 active site 311402000954 catalytic site [active] 311402000955 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 311402000956 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 311402000957 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402000958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000959 dimer interface [polypeptide binding]; other site 311402000960 conserved gate region; other site 311402000961 putative PBP binding loops; other site 311402000962 ABC-ATPase subunit interface; other site 311402000963 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402000964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402000965 dimer interface [polypeptide binding]; other site 311402000966 conserved gate region; other site 311402000967 putative PBP binding loops; other site 311402000968 ABC-ATPase subunit interface; other site 311402000969 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402000970 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402000971 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402000972 Walker A/P-loop; other site 311402000973 ATP binding site [chemical binding]; other site 311402000974 Q-loop/lid; other site 311402000975 ABC transporter signature motif; other site 311402000976 Walker B; other site 311402000977 D-loop; other site 311402000978 H-loop/switch region; other site 311402000979 TOBE domain; Region: TOBE_2; pfam08402 311402000980 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 311402000981 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 311402000982 trimer interface [polypeptide binding]; other site 311402000983 active site 311402000984 substrate binding site [chemical binding]; other site 311402000985 CoA binding site [chemical binding]; other site 311402000986 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 311402000987 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402000988 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402000989 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402000990 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402000991 Walker A/P-loop; other site 311402000992 ATP binding site [chemical binding]; other site 311402000993 Q-loop/lid; other site 311402000994 ABC transporter signature motif; other site 311402000995 Walker B; other site 311402000996 D-loop; other site 311402000997 H-loop/switch region; other site 311402000998 TOBE domain; Region: TOBE_2; pfam08402 311402000999 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 311402001000 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402001001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001002 dimer interface [polypeptide binding]; other site 311402001003 conserved gate region; other site 311402001004 putative PBP binding loops; other site 311402001005 ABC-ATPase subunit interface; other site 311402001006 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 311402001007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001008 dimer interface [polypeptide binding]; other site 311402001009 conserved gate region; other site 311402001010 putative PBP binding loops; other site 311402001011 ABC-ATPase subunit interface; other site 311402001012 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 311402001013 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402001014 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402001015 DNA-binding site [nucleotide binding]; DNA binding site 311402001016 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 311402001017 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 311402001018 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 311402001019 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402001020 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402001021 Walker A/P-loop; other site 311402001022 ATP binding site [chemical binding]; other site 311402001023 Q-loop/lid; other site 311402001024 ABC transporter signature motif; other site 311402001025 Walker B; other site 311402001026 D-loop; other site 311402001027 H-loop/switch region; other site 311402001028 TOBE domain; Region: TOBE_2; pfam08402 311402001029 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402001030 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 311402001031 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001032 ABC-ATPase subunit interface; other site 311402001033 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402001034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001035 dimer interface [polypeptide binding]; other site 311402001036 conserved gate region; other site 311402001037 putative PBP binding loops; other site 311402001038 ABC-ATPase subunit interface; other site 311402001039 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 311402001040 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 311402001041 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402001042 substrate binding site [chemical binding]; other site 311402001043 dimer interface [polypeptide binding]; other site 311402001044 ATP binding site [chemical binding]; other site 311402001045 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 311402001046 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 311402001047 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 311402001048 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402001049 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402001050 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402001051 Walker A/P-loop; other site 311402001052 ATP binding site [chemical binding]; other site 311402001053 Q-loop/lid; other site 311402001054 ABC transporter signature motif; other site 311402001055 Walker B; other site 311402001056 D-loop; other site 311402001057 H-loop/switch region; other site 311402001058 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402001059 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402001060 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402001061 TM-ABC transporter signature motif; other site 311402001062 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 311402001063 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 311402001064 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 311402001065 putative active site [active] 311402001066 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402001067 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 311402001068 substrate binding site [chemical binding]; other site 311402001069 ATP binding site [chemical binding]; other site 311402001070 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 311402001071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402001072 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402001073 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 311402001074 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 311402001075 putative NAD(P) binding site [chemical binding]; other site 311402001076 Fic family protein [Function unknown]; Region: COG3177 311402001077 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 311402001078 Fic/DOC family; Region: Fic; pfam02661 311402001079 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 311402001080 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 311402001081 N- and C-terminal domain interface [polypeptide binding]; other site 311402001082 active site 311402001083 MgATP binding site [chemical binding]; other site 311402001084 catalytic site [active] 311402001085 metal binding site [ion binding]; metal-binding site 311402001086 carbohydrate binding site [chemical binding]; other site 311402001087 putative homodimer interface [polypeptide binding]; other site 311402001088 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 311402001089 classical (c) SDRs; Region: SDR_c; cd05233 311402001090 NAD(P) binding site [chemical binding]; other site 311402001091 active site 311402001092 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 311402001093 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402001094 TM-ABC transporter signature motif; other site 311402001095 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 311402001096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402001097 Walker A/P-loop; other site 311402001098 ATP binding site [chemical binding]; other site 311402001099 Q-loop/lid; other site 311402001100 ABC transporter signature motif; other site 311402001101 Walker B; other site 311402001102 D-loop; other site 311402001103 H-loop/switch region; other site 311402001104 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 311402001105 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 311402001106 putative ligand binding site [chemical binding]; other site 311402001107 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402001108 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402001109 DNA binding site [nucleotide binding] 311402001110 domain linker motif; other site 311402001111 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 311402001112 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 311402001113 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402001114 putative substrate translocation pore; other site 311402001115 Cupin; Region: Cupin_6; pfam12852 311402001116 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402001117 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402001118 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 311402001119 catalytic residues [active] 311402001120 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 311402001121 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 311402001122 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 311402001123 Class I ribonucleotide reductase; Region: RNR_I; cd01679 311402001124 active site 311402001125 dimer interface [polypeptide binding]; other site 311402001126 catalytic residues [active] 311402001127 effector binding site; other site 311402001128 R2 peptide binding site; other site 311402001129 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 311402001130 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 311402001131 dimer interface [polypeptide binding]; other site 311402001132 putative radical transfer pathway; other site 311402001133 diiron center [ion binding]; other site 311402001134 tyrosyl radical; other site 311402001135 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402001136 dimerization interface [polypeptide binding]; other site 311402001137 putative DNA binding site [nucleotide binding]; other site 311402001138 putative Zn2+ binding site [ion binding]; other site 311402001139 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 311402001140 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 311402001141 active site 311402001142 FMN binding site [chemical binding]; other site 311402001143 substrate binding site [chemical binding]; other site 311402001144 homotetramer interface [polypeptide binding]; other site 311402001145 catalytic residue [active] 311402001146 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 311402001147 Amidase; Region: Amidase; cl11426 311402001148 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402001149 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402001150 substrate binding pocket [chemical binding]; other site 311402001151 membrane-bound complex binding site; other site 311402001152 hinge residues; other site 311402001153 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402001154 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001155 dimer interface [polypeptide binding]; other site 311402001156 conserved gate region; other site 311402001157 putative PBP binding loops; other site 311402001158 ABC-ATPase subunit interface; other site 311402001159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001160 dimer interface [polypeptide binding]; other site 311402001161 conserved gate region; other site 311402001162 putative PBP binding loops; other site 311402001163 ABC-ATPase subunit interface; other site 311402001164 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 311402001165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402001166 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 311402001167 putative dimerization interface [polypeptide binding]; other site 311402001168 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 311402001169 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 311402001170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402001171 catalytic residue [active] 311402001172 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 311402001173 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 311402001174 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402001175 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 311402001176 homotrimer interaction site [polypeptide binding]; other site 311402001177 putative active site [active] 311402001178 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 311402001179 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 311402001180 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402001181 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 311402001182 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 311402001183 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 311402001184 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402001185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402001186 active site 311402001187 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 311402001188 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 311402001189 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 311402001190 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 311402001191 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 311402001192 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402001193 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 311402001194 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 311402001195 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 311402001196 active site 311402001197 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 311402001198 Coenzyme A transferase; Region: CoA_trans; cl17247 311402001199 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 311402001200 putative hydrophobic ligand binding site [chemical binding]; other site 311402001201 protein interface [polypeptide binding]; other site 311402001202 gate; other site 311402001203 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402001204 putative substrate translocation pore; other site 311402001205 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402001206 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402001207 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402001208 active site 311402001209 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 311402001210 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 311402001211 Dienelactone hydrolase family; Region: DLH; pfam01738 311402001212 short chain dehydrogenase; Provisional; Region: PRK08226 311402001213 classical (c) SDRs; Region: SDR_c; cd05233 311402001214 NAD(P) binding site [chemical binding]; other site 311402001215 active site 311402001216 Uncharacterized conserved protein [Function unknown]; Region: COG2128 311402001217 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 311402001218 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311402001219 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402001220 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 311402001221 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402001222 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402001223 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 311402001224 Domain of unknown function (DUF336); Region: DUF336; pfam03928 311402001225 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 311402001226 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402001227 putative active site [active] 311402001228 putative metal binding site [ion binding]; other site 311402001229 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311402001230 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402001231 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 311402001232 Transcriptional regulator [Transcription]; Region: IclR; COG1414 311402001233 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402001234 Uncharacterized conserved protein [Function unknown]; Region: COG2128 311402001235 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 311402001236 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 311402001237 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 311402001238 TM-ABC transporter signature motif; other site 311402001239 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 311402001240 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402001241 TM-ABC transporter signature motif; other site 311402001242 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 311402001243 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 311402001244 Walker A/P-loop; other site 311402001245 ATP binding site [chemical binding]; other site 311402001246 Q-loop/lid; other site 311402001247 ABC transporter signature motif; other site 311402001248 Walker B; other site 311402001249 D-loop; other site 311402001250 H-loop/switch region; other site 311402001251 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402001252 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 311402001253 Walker A/P-loop; other site 311402001254 ATP binding site [chemical binding]; other site 311402001255 Q-loop/lid; other site 311402001256 ABC transporter signature motif; other site 311402001257 Walker B; other site 311402001258 D-loop; other site 311402001259 H-loop/switch region; other site 311402001260 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 311402001261 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_4; cd06337 311402001262 putative ligand binding site [chemical binding]; other site 311402001263 FAD binding domain; Region: FAD_binding_3; pfam01494 311402001264 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 311402001265 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 311402001266 active site 311402001267 dimer interface [polypeptide binding]; other site 311402001268 metal binding site [ion binding]; metal-binding site 311402001269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402001270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402001271 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 311402001272 dimerization interface [polypeptide binding]; other site 311402001273 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 311402001274 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 311402001275 dimer interface [polypeptide binding]; other site 311402001276 active site 311402001277 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 311402001278 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 311402001279 active site 311402001280 catalytic site [active] 311402001281 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 311402001282 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402001283 hypothetical protein; Provisional; Region: PRK11622 311402001284 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402001285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001286 dimer interface [polypeptide binding]; other site 311402001287 conserved gate region; other site 311402001288 putative PBP binding loops; other site 311402001289 ABC-ATPase subunit interface; other site 311402001290 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402001291 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001292 dimer interface [polypeptide binding]; other site 311402001293 conserved gate region; other site 311402001294 putative PBP binding loops; other site 311402001295 ABC-ATPase subunit interface; other site 311402001296 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402001297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402001298 Walker A/P-loop; other site 311402001299 ATP binding site [chemical binding]; other site 311402001300 Q-loop/lid; other site 311402001301 ABC transporter signature motif; other site 311402001302 Walker B; other site 311402001303 D-loop; other site 311402001304 H-loop/switch region; other site 311402001305 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 311402001306 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402001307 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402001308 nucleotide binding site [chemical binding]; other site 311402001309 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 311402001310 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402001311 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402001312 LysE type translocator; Region: LysE; cl00565 311402001313 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402001314 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 311402001315 AsnC family; Region: AsnC_trans_reg; pfam01037 311402001316 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 311402001317 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 311402001318 Fe-S cluster binding site [ion binding]; other site 311402001319 active site 311402001320 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 311402001321 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402001322 FeS/SAM binding site; other site 311402001323 DDE domain; Region: DDE_Tnp_IS240; pfam13610 311402001324 Integrase core domain; Region: rve; pfam00665 311402001325 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402001326 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402001327 DNA binding site [nucleotide binding] 311402001328 domain linker motif; other site 311402001329 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_11; cd06293 311402001330 putative dimerization interface [polypeptide binding]; other site 311402001331 putative ligand binding site [chemical binding]; other site 311402001332 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 311402001333 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 311402001334 ligand binding site [chemical binding]; other site 311402001335 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402001336 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402001337 Walker A/P-loop; other site 311402001338 ATP binding site [chemical binding]; other site 311402001339 Q-loop/lid; other site 311402001340 ABC transporter signature motif; other site 311402001341 Walker B; other site 311402001342 D-loop; other site 311402001343 H-loop/switch region; other site 311402001344 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402001345 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402001346 TM-ABC transporter signature motif; other site 311402001347 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 311402001348 active site 311402001349 substrate binding pocket [chemical binding]; other site 311402001350 homodimer interaction site [polypeptide binding]; other site 311402001351 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 311402001352 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402001353 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 311402001354 substrate binding site [chemical binding]; other site 311402001355 dimer interface [polypeptide binding]; other site 311402001356 ATP binding site [chemical binding]; other site 311402001357 Predicted TIM-barrel enzyme [General function prediction only]; Region: SgcQ; COG0434 311402001358 allantoate amidohydrolase; Reviewed; Region: PRK12893 311402001359 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 311402001360 active site 311402001361 metal binding site [ion binding]; metal-binding site 311402001362 dimer interface [polypeptide binding]; other site 311402001363 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 311402001364 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402001365 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402001366 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 311402001367 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402001368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402001369 active site 311402001370 phosphorylation site [posttranslational modification] 311402001371 intermolecular recognition site; other site 311402001372 dimerization interface [polypeptide binding]; other site 311402001373 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402001374 DNA binding site [nucleotide binding] 311402001375 HAMP domain; Region: HAMP; pfam00672 311402001376 dimerization interface [polypeptide binding]; other site 311402001377 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402001378 dimer interface [polypeptide binding]; other site 311402001379 phosphorylation site [posttranslational modification] 311402001380 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402001381 ATP binding site [chemical binding]; other site 311402001382 Mg2+ binding site [ion binding]; other site 311402001383 G-X-G motif; other site 311402001384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402001385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402001386 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 311402001387 putative effector binding pocket; other site 311402001388 dimerization interface [polypeptide binding]; other site 311402001389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402001390 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402001391 Integrase core domain; Region: rve; pfam00665 311402001392 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 311402001393 EamA-like transporter family; Region: EamA; pfam00892 311402001394 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 311402001395 FAD dependent oxidoreductase; Region: DAO; pfam01266 311402001396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 311402001397 Integrase core domain; Region: rve; pfam00665 311402001398 Integrase core domain; Region: rve_3; pfam13683 311402001399 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 311402001400 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402001401 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001402 dimer interface [polypeptide binding]; other site 311402001403 conserved gate region; other site 311402001404 putative PBP binding loops; other site 311402001405 ABC-ATPase subunit interface; other site 311402001406 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402001407 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001408 dimer interface [polypeptide binding]; other site 311402001409 conserved gate region; other site 311402001410 putative PBP binding loops; other site 311402001411 ABC-ATPase subunit interface; other site 311402001412 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402001413 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402001414 substrate binding pocket [chemical binding]; other site 311402001415 membrane-bound complex binding site; other site 311402001416 hinge residues; other site 311402001417 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402001418 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311402001419 Walker A/P-loop; other site 311402001420 ATP binding site [chemical binding]; other site 311402001421 Q-loop/lid; other site 311402001422 ABC transporter signature motif; other site 311402001423 Walker B; other site 311402001424 D-loop; other site 311402001425 H-loop/switch region; other site 311402001426 hypothetical protein; Provisional; Region: PRK07482 311402001427 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402001428 inhibitor-cofactor binding pocket; inhibition site 311402001429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402001430 catalytic residue [active] 311402001431 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402001432 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402001433 putative DNA binding site [nucleotide binding]; other site 311402001434 putative Zn2+ binding site [ion binding]; other site 311402001435 AsnC family; Region: AsnC_trans_reg; pfam01037 311402001436 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402001437 Integrase core domain; Region: rve; pfam00665 311402001438 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 311402001439 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 311402001440 tetramer interface [polypeptide binding]; other site 311402001441 active site 311402001442 Mg2+/Mn2+ binding site [ion binding]; other site 311402001443 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_9; cd08496 311402001444 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402001445 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402001446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001447 dimer interface [polypeptide binding]; other site 311402001448 conserved gate region; other site 311402001449 putative PBP binding loops; other site 311402001450 ABC-ATPase subunit interface; other site 311402001451 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402001452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001453 dimer interface [polypeptide binding]; other site 311402001454 conserved gate region; other site 311402001455 putative PBP binding loops; other site 311402001456 ABC-ATPase subunit interface; other site 311402001457 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402001458 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402001459 Walker A/P-loop; other site 311402001460 ATP binding site [chemical binding]; other site 311402001461 Q-loop/lid; other site 311402001462 ABC transporter signature motif; other site 311402001463 Walker B; other site 311402001464 D-loop; other site 311402001465 H-loop/switch region; other site 311402001466 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402001467 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 311402001468 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402001469 Walker A/P-loop; other site 311402001470 ATP binding site [chemical binding]; other site 311402001471 Q-loop/lid; other site 311402001472 ABC transporter signature motif; other site 311402001473 Walker B; other site 311402001474 D-loop; other site 311402001475 H-loop/switch region; other site 311402001476 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402001477 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 311402001478 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402001479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402001480 homodimer interface [polypeptide binding]; other site 311402001481 catalytic residue [active] 311402001482 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402001483 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402001484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402001485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402001486 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 311402001487 dimerization interface [polypeptide binding]; other site 311402001488 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 311402001489 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 311402001490 Flavoprotein; Region: Flavoprotein; pfam02441 311402001491 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 311402001492 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402001493 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 311402001494 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 311402001495 tetramer interface [polypeptide binding]; other site 311402001496 active site 311402001497 Mg2+/Mn2+ binding site [ion binding]; other site 311402001498 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402001499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001500 dimer interface [polypeptide binding]; other site 311402001501 conserved gate region; other site 311402001502 putative PBP binding loops; other site 311402001503 ABC-ATPase subunit interface; other site 311402001504 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402001505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001506 dimer interface [polypeptide binding]; other site 311402001507 conserved gate region; other site 311402001508 putative PBP binding loops; other site 311402001509 ABC-ATPase subunit interface; other site 311402001510 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402001511 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402001512 Walker A/P-loop; other site 311402001513 ATP binding site [chemical binding]; other site 311402001514 Q-loop/lid; other site 311402001515 ABC transporter signature motif; other site 311402001516 Walker B; other site 311402001517 D-loop; other site 311402001518 H-loop/switch region; other site 311402001519 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402001520 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402001521 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402001522 Walker A/P-loop; other site 311402001523 ATP binding site [chemical binding]; other site 311402001524 Q-loop/lid; other site 311402001525 ABC transporter signature motif; other site 311402001526 Walker B; other site 311402001527 D-loop; other site 311402001528 H-loop/switch region; other site 311402001529 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402001530 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 311402001531 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 311402001532 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402001533 active site 311402001534 allantoate amidohydrolase; Reviewed; Region: PRK12893 311402001535 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 311402001536 active site 311402001537 metal binding site [ion binding]; metal-binding site 311402001538 dimer interface [polypeptide binding]; other site 311402001539 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 311402001540 active sites [active] 311402001541 tetramer interface [polypeptide binding]; other site 311402001542 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402001543 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 311402001544 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 311402001545 metal ion-dependent adhesion site (MIDAS); other site 311402001546 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 311402001547 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 311402001548 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 311402001549 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 311402001550 Walker A motif; other site 311402001551 ATP binding site [chemical binding]; other site 311402001552 Walker B motif; other site 311402001553 arginine finger; other site 311402001554 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311402001555 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 311402001556 nudix motif; other site 311402001557 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 311402001558 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 311402001559 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 311402001560 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 311402001561 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 311402001562 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 311402001563 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 311402001564 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 311402001565 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 311402001566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 311402001567 Anti-sigma-K factor rskA; Region: RskA; pfam10099 311402001568 RNA polymerase sigma factor; Provisional; Region: PRK12537 311402001569 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402001570 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402001571 DNA binding residues [nucleotide binding] 311402001572 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 311402001573 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 311402001574 Integrase core domain; Region: rve; pfam00665 311402001575 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402001576 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402001577 nucleotide binding site [chemical binding]; other site 311402001578 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 311402001579 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 311402001580 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 311402001581 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 311402001582 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 311402001583 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 311402001584 Domain interface; other site 311402001585 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 311402001586 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 311402001587 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 311402001588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402001589 DNA-binding site [nucleotide binding]; DNA binding site 311402001590 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402001591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402001592 homodimer interface [polypeptide binding]; other site 311402001593 catalytic residue [active] 311402001594 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 311402001595 Predicted amidohydrolase [General function prediction only]; Region: COG0388 311402001596 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 311402001597 putative active site [active] 311402001598 catalytic triad [active] 311402001599 putative dimer interface [polypeptide binding]; other site 311402001600 Radical SAM superfamily; Region: Radical_SAM; pfam04055 311402001601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402001602 Coenzyme A binding pocket [chemical binding]; other site 311402001603 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 311402001604 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 311402001605 dimerization interface [polypeptide binding]; other site 311402001606 putative ATP binding site [chemical binding]; other site 311402001607 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 311402001608 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 311402001609 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 311402001610 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 311402001611 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 311402001612 probable biosynthetic protein, Pnap_2097 family; Region: biosn_Pnap_2097; TIGR04099 311402001613 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 311402001614 putative heme binding pocket [chemical binding]; other site 311402001615 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 311402001616 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 311402001617 putative molybdopterin cofactor binding site [chemical binding]; other site 311402001618 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 311402001619 putative molybdopterin cofactor binding site; other site 311402001620 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402001621 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402001622 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 311402001623 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 311402001624 active site 311402001625 dimer interface [polypeptide binding]; other site 311402001626 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 311402001627 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402001628 active site 311402001629 metal binding site [ion binding]; metal-binding site 311402001630 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402001631 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402001632 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402001633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001634 dimer interface [polypeptide binding]; other site 311402001635 conserved gate region; other site 311402001636 putative PBP binding loops; other site 311402001637 ABC-ATPase subunit interface; other site 311402001638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001639 dimer interface [polypeptide binding]; other site 311402001640 conserved gate region; other site 311402001641 putative PBP binding loops; other site 311402001642 ABC-ATPase subunit interface; other site 311402001643 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402001644 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402001645 Walker A/P-loop; other site 311402001646 ATP binding site [chemical binding]; other site 311402001647 Q-loop/lid; other site 311402001648 ABC transporter signature motif; other site 311402001649 Walker B; other site 311402001650 D-loop; other site 311402001651 H-loop/switch region; other site 311402001652 TOBE domain; Region: TOBE_2; pfam08402 311402001653 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402001654 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402001655 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 311402001656 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311402001657 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 311402001658 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 311402001659 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 311402001660 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 311402001661 active site 311402001662 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 311402001663 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001664 dimer interface [polypeptide binding]; other site 311402001665 conserved gate region; other site 311402001666 putative PBP binding loops; other site 311402001667 ABC-ATPase subunit interface; other site 311402001668 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 311402001669 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402001670 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 311402001671 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402001672 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402001673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402001674 Walker A/P-loop; other site 311402001675 ATP binding site [chemical binding]; other site 311402001676 Q-loop/lid; other site 311402001677 ABC transporter signature motif; other site 311402001678 Walker B; other site 311402001679 D-loop; other site 311402001680 H-loop/switch region; other site 311402001681 TOBE domain; Region: TOBE_2; pfam08402 311402001682 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402001683 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402001684 substrate binding pocket [chemical binding]; other site 311402001685 membrane-bound complex binding site; other site 311402001686 hinge residues; other site 311402001687 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402001688 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001689 dimer interface [polypeptide binding]; other site 311402001690 conserved gate region; other site 311402001691 putative PBP binding loops; other site 311402001692 ABC-ATPase subunit interface; other site 311402001693 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 311402001694 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402001695 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402001696 DNA-binding site [nucleotide binding]; DNA binding site 311402001697 FCD domain; Region: FCD; pfam07729 311402001698 nickel responsive regulator; Provisional; Region: PRK02967 311402001699 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 311402001700 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 311402001701 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402001702 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 311402001703 substrate binding site [chemical binding]; other site 311402001704 nickel transporter permease NikB; Provisional; Region: PRK10352 311402001705 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001706 dimer interface [polypeptide binding]; other site 311402001707 conserved gate region; other site 311402001708 putative PBP binding loops; other site 311402001709 ABC-ATPase subunit interface; other site 311402001710 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 311402001711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001712 dimer interface [polypeptide binding]; other site 311402001713 conserved gate region; other site 311402001714 putative PBP binding loops; other site 311402001715 ABC-ATPase subunit interface; other site 311402001716 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 311402001717 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402001718 Walker A/P-loop; other site 311402001719 ATP binding site [chemical binding]; other site 311402001720 Q-loop/lid; other site 311402001721 ABC transporter signature motif; other site 311402001722 Walker B; other site 311402001723 D-loop; other site 311402001724 H-loop/switch region; other site 311402001725 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402001726 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 311402001727 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402001728 Walker A/P-loop; other site 311402001729 ATP binding site [chemical binding]; other site 311402001730 Q-loop/lid; other site 311402001731 ABC transporter signature motif; other site 311402001732 Walker B; other site 311402001733 D-loop; other site 311402001734 H-loop/switch region; other site 311402001735 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402001736 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 311402001737 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 311402001738 putative switch regulator; other site 311402001739 non-specific DNA interactions [nucleotide binding]; other site 311402001740 DNA binding site [nucleotide binding] 311402001741 sequence specific DNA binding site [nucleotide binding]; other site 311402001742 putative cAMP binding site [chemical binding]; other site 311402001743 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 311402001744 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 311402001745 intersubunit interface [polypeptide binding]; other site 311402001746 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 311402001747 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402001748 ABC-ATPase subunit interface; other site 311402001749 dimer interface [polypeptide binding]; other site 311402001750 putative PBP binding regions; other site 311402001751 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 311402001752 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 311402001753 Walker A/P-loop; other site 311402001754 ATP binding site [chemical binding]; other site 311402001755 Q-loop/lid; other site 311402001756 ABC transporter signature motif; other site 311402001757 Walker B; other site 311402001758 D-loop; other site 311402001759 H-loop/switch region; other site 311402001760 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 311402001761 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 311402001762 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 311402001763 Cu(I) binding site [ion binding]; other site 311402001764 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 311402001765 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 311402001766 conserved cys residue [active] 311402001767 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 311402001768 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402001769 FeS/SAM binding site; other site 311402001770 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 311402001771 ferredoxin-NADP+ reductase; Region: PLN02852 311402001772 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 311402001773 Ferredoxin [Energy production and conversion]; Region: COG1146 311402001774 4Fe-4S binding domain; Region: Fer4; pfam00037 311402001775 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 311402001776 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 311402001777 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 311402001778 putative [4Fe-4S] binding site [ion binding]; other site 311402001779 putative molybdopterin cofactor binding site [chemical binding]; other site 311402001780 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 311402001781 molybdopterin cofactor binding site; other site 311402001782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402001783 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402001784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402001785 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402001786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402001787 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402001788 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 311402001789 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 311402001790 active site 311402001791 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 311402001792 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402001793 metal binding site [ion binding]; metal-binding site 311402001794 active site 311402001795 I-site; other site 311402001796 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402001797 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402001798 PAS domain; Region: PAS_9; pfam13426 311402001799 putative active site [active] 311402001800 heme pocket [chemical binding]; other site 311402001801 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402001802 PAS domain; Region: PAS_9; pfam13426 311402001803 putative active site [active] 311402001804 heme pocket [chemical binding]; other site 311402001805 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402001806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402001807 dimer interface [polypeptide binding]; other site 311402001808 putative CheW interface [polypeptide binding]; other site 311402001809 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 311402001810 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 311402001811 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402001812 Walker A motif; other site 311402001813 ATP binding site [chemical binding]; other site 311402001814 Walker B motif; other site 311402001815 arginine finger; other site 311402001816 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 311402001817 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 311402001818 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 311402001819 putative NAD(P) binding site [chemical binding]; other site 311402001820 catalytic Zn binding site [ion binding]; other site 311402001821 SnoaL-like domain; Region: SnoaL_2; pfam12680 311402001822 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 311402001823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 311402001824 hypothetical protein; Validated; Region: PRK06201 311402001825 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 311402001826 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 311402001827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402001828 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 311402001829 putative dimerization interface [polypeptide binding]; other site 311402001830 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 311402001831 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402001832 carboxyltransferase (CT) interaction site; other site 311402001833 biotinylation site [posttranslational modification]; other site 311402001834 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 311402001835 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402001836 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 311402001837 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 311402001838 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 311402001839 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402001840 carboxyltransferase (CT) interaction site; other site 311402001841 biotinylation site [posttranslational modification]; other site 311402001842 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 311402001843 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 311402001844 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 311402001845 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 311402001846 putative active site [active] 311402001847 aspartate aminotransferase; Provisional; Region: PRK05764 311402001848 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402001849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402001850 homodimer interface [polypeptide binding]; other site 311402001851 catalytic residue [active] 311402001852 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 311402001853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402001854 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 311402001855 putative dimerization interface [polypeptide binding]; other site 311402001856 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 311402001857 classical (c) SDRs; Region: SDR_c; cd05233 311402001858 NAD(P) binding site [chemical binding]; other site 311402001859 active site 311402001860 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402001861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001862 dimer interface [polypeptide binding]; other site 311402001863 conserved gate region; other site 311402001864 putative PBP binding loops; other site 311402001865 ABC-ATPase subunit interface; other site 311402001866 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402001867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402001868 dimer interface [polypeptide binding]; other site 311402001869 conserved gate region; other site 311402001870 putative PBP binding loops; other site 311402001871 ABC-ATPase subunit interface; other site 311402001872 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402001873 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311402001874 Walker A/P-loop; other site 311402001875 ATP binding site [chemical binding]; other site 311402001876 Q-loop/lid; other site 311402001877 ABC transporter signature motif; other site 311402001878 Walker B; other site 311402001879 D-loop; other site 311402001880 H-loop/switch region; other site 311402001881 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402001882 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402001883 substrate binding pocket [chemical binding]; other site 311402001884 membrane-bound complex binding site; other site 311402001885 hinge residues; other site 311402001886 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 311402001887 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402001888 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 311402001889 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 311402001890 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 311402001891 FAD binding domain; Region: FAD_binding_4; pfam01565 311402001892 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 311402001893 Cysteine-rich domain; Region: CCG; pfam02754 311402001894 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 311402001895 FAD binding domain; Region: FAD_binding_4; pfam01565 311402001896 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311402001897 MarR family; Region: MarR_2; pfam12802 311402001898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402001899 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 311402001900 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311402001901 MarR family; Region: MarR_2; pfam12802 311402001902 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 311402001903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402001904 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 311402001905 Cytochrome P450; Region: p450; cl12078 311402001906 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 311402001907 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402001908 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 311402001909 NAD(P) binding site [chemical binding]; other site 311402001910 catalytic residues [active] 311402001911 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 311402001912 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 311402001913 acyl-activating enzyme (AAE) consensus motif; other site 311402001914 AMP binding site [chemical binding]; other site 311402001915 active site 311402001916 CoA binding site [chemical binding]; other site 311402001917 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 311402001918 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402001919 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402001920 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 311402001921 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 311402001922 enoyl-CoA hydratase; Provisional; Region: PRK05995 311402001923 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 311402001924 substrate binding site [chemical binding]; other site 311402001925 oxyanion hole (OAH) forming residues; other site 311402001926 trimer interface [polypeptide binding]; other site 311402001927 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 311402001928 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 311402001929 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402001930 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311402001931 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 311402001932 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402001933 carboxyltransferase (CT) interaction site; other site 311402001934 biotinylation site [posttranslational modification]; other site 311402001935 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 311402001936 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 311402001937 active site 311402001938 catalytic residues [active] 311402001939 metal binding site [ion binding]; metal-binding site 311402001940 serC leader; predicted by Infernal 311402001941 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 311402001942 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 311402001943 DNA binding residues [nucleotide binding] 311402001944 dimer interface [polypeptide binding]; other site 311402001945 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 311402001946 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402001947 non-specific DNA binding site [nucleotide binding]; other site 311402001948 salt bridge; other site 311402001949 sequence-specific DNA binding site [nucleotide binding]; other site 311402001950 Cupin domain; Region: Cupin_2; pfam07883 311402001951 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 311402001952 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402001953 inhibitor-cofactor binding pocket; inhibition site 311402001954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402001955 catalytic residue [active] 311402001956 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A; cl17680 311402001957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 311402001958 Transposase; Region: DEDD_Tnp_IS110; pfam01548 311402001959 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 311402001960 Transposase; Region: HTH_Tnp_1; pfam01527 311402001961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 311402001962 HTH-like domain; Region: HTH_21; pfam13276 311402001963 Integrase core domain; Region: rve; pfam00665 311402001964 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 311402001965 Helix-turn-helix domain; Region: HTH_17; pfam12728 311402001966 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402001967 P-loop; other site 311402001968 Magnesium ion binding site [ion binding]; other site 311402001969 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402001970 Magnesium ion binding site [ion binding]; other site 311402001971 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 311402001972 ParB-like nuclease domain; Region: ParB; smart00470 311402001973 replication initiation protein RepC; Provisional; Region: PRK13824 311402001974 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402001975 putative DNA binding site [nucleotide binding]; other site 311402001976 putative Zn2+ binding site [ion binding]; other site 311402001977 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 311402001978 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 311402001979 DNA binding site [nucleotide binding] 311402001980 dimer interface [polypeptide binding]; other site 311402001981 Int/Topo IB signature motif; other site 311402001982 active site 311402001983 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 311402001984 Transposase; Region: DEDD_Tnp_IS110; pfam01548 311402001985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 311402001986 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 311402001987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402001988 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402001989 Integrase core domain; Region: rve; pfam00665 311402001990 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 311402001991 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 311402001992 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 311402001993 putative DNA binding site [nucleotide binding]; other site 311402001994 putative homodimer interface [polypeptide binding]; other site 311402001995 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 311402001996 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 311402001997 DNA binding site [nucleotide binding] 311402001998 heterodimer interface [polypeptide binding]; other site 311402001999 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 311402002000 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 311402002001 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 311402002002 active site 311402002003 DNA binding site [nucleotide binding] 311402002004 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 311402002005 DNA binding site [nucleotide binding] 311402002006 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 311402002007 nucleotide binding site [chemical binding]; other site 311402002008 DDE superfamily endonuclease; Region: DDE_3; pfam13358 311402002009 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 311402002010 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 311402002011 trehalose synthase; Region: treS_nterm; TIGR02456 311402002012 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 311402002013 active site 311402002014 catalytic site [active] 311402002015 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402002016 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311402002017 putative active site [active] 311402002018 heme pocket [chemical binding]; other site 311402002019 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402002020 putative active site [active] 311402002021 heme pocket [chemical binding]; other site 311402002022 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402002023 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402002024 dimer interface [polypeptide binding]; other site 311402002025 putative CheW interface [polypeptide binding]; other site 311402002026 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 311402002027 IHF dimer interface [polypeptide binding]; other site 311402002028 IHF - DNA interface [nucleotide binding]; other site 311402002029 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402002030 dimerization interface [polypeptide binding]; other site 311402002031 putative DNA binding site [nucleotide binding]; other site 311402002032 putative Zn2+ binding site [ion binding]; other site 311402002033 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402002034 ABC transporter signature motif; other site 311402002035 Walker B; other site 311402002036 D-loop; other site 311402002037 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 311402002038 Winged helix-turn helix; Region: HTH_29; pfam13551 311402002039 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402002040 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402002041 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402002042 Integrase core domain; Region: rve; pfam00665 311402002043 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 311402002044 conjugal transfer protein TraD; Provisional; Region: PRK13847 311402002045 conjugal transfer protein TraC; Provisional; Region: PRK13848 311402002046 Transposase; Region: HTH_Tnp_1; cl17663 311402002047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402002048 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 311402002049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402002050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402002051 metal binding site [ion binding]; metal-binding site 311402002052 active site 311402002053 I-site; other site 311402002054 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402002055 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402002056 non-specific DNA binding site [nucleotide binding]; other site 311402002057 salt bridge; other site 311402002058 sequence-specific DNA binding site [nucleotide binding]; other site 311402002059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402002060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402002061 metal binding site [ion binding]; metal-binding site 311402002062 active site 311402002063 I-site; other site 311402002064 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402002065 DDE domain; Region: DDE_Tnp_IS240; pfam13610 311402002066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402002067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 311402002068 Putative glucoamylase; Region: Glycoamylase; pfam10091 311402002069 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402002070 non-specific DNA binding site [nucleotide binding]; other site 311402002071 salt bridge; other site 311402002072 sequence-specific DNA binding site [nucleotide binding]; other site 311402002073 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 311402002074 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 311402002075 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 311402002076 active site 311402002077 metal binding site [ion binding]; metal-binding site 311402002078 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 311402002079 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 311402002080 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402002081 S-adenosylmethionine binding site [chemical binding]; other site 311402002082 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 311402002083 DDE superfamily endonuclease; Region: DDE_3; pfam13358 311402002084 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 311402002085 DEAD-like helicases superfamily; Region: DEXDc; smart00487 311402002086 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 311402002087 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 311402002088 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 311402002089 tetramer interface [polypeptide binding]; other site 311402002090 active site 311402002091 Mg2+/Mn2+ binding site [ion binding]; other site 311402002092 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 311402002093 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 311402002094 DDE superfamily endonuclease; Region: DDE_3; pfam13358 311402002095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 311402002096 Transposase; Region: DEDD_Tnp_IS110; pfam01548 311402002097 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 311402002098 Protein of unknown function (DUF736); Region: DUF736; pfam05284 311402002099 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 311402002100 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 311402002101 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402002102 active site 311402002103 DNA binding site [nucleotide binding] 311402002104 Int/Topo IB signature motif; other site 311402002105 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402002106 active site 311402002107 DNA binding site [nucleotide binding] 311402002108 Int/Topo IB signature motif; other site 311402002109 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 311402002110 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 311402002111 Int/Topo IB signature motif; other site 311402002112 Protein of unknown function (DUF736); Region: DUF736; pfam05284 311402002113 Protein of unknown function (DUF736); Region: DUF736; cl02303 311402002114 Protein of unknown function (DUF736); Region: DUF736; pfam05284 311402002115 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 311402002116 IHF dimer interface [polypeptide binding]; other site 311402002117 IHF - DNA interface [nucleotide binding]; other site 311402002118 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 311402002119 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 311402002120 Catalytic site; other site 311402002121 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 311402002122 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 311402002123 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311402002124 Walker A motif; other site 311402002125 ATP binding site [chemical binding]; other site 311402002126 Walker B motif; other site 311402002127 conjugal transfer protein TraD; Provisional; Region: PRK13847 311402002128 conjugal transfer protein TraC; Provisional; Region: PRK13848 311402002129 Dtr system oriT relaxase; Provisional; Region: PRK13826 311402002130 MobA/MobL family; Region: MobA_MobL; pfam03389 311402002131 AAA domain; Region: AAA_30; pfam13604 311402002132 Family description; Region: UvrD_C_2; pfam13538 311402002133 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 311402002134 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 311402002135 conjugal transfer protein TraH; Provisional; Region: PRK13843 311402002136 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 311402002137 Prokaryotic Transcriptional repressor TraM; Region: Prok-TraM; pfam09228 311402002138 transcriptional regulator TraR; Provisional; Region: PRK13870 311402002139 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402002140 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402002141 DNA binding residues [nucleotide binding] 311402002142 dimerization interface [polypeptide binding]; other site 311402002143 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 311402002144 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402002145 catalytic residue [active] 311402002146 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402002147 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 311402002148 AsnC family; Region: AsnC_trans_reg; pfam01037 311402002149 Transcriptional regulator [Transcription]; Region: IclR; COG1414 311402002150 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 311402002151 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402002152 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402002153 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402002154 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402002155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402002156 ABC transporter signature motif; other site 311402002157 Walker B; other site 311402002158 D-loop; other site 311402002159 H-loop/switch region; other site 311402002160 TOBE domain; Region: TOBE_2; pfam08402 311402002161 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002162 dimer interface [polypeptide binding]; other site 311402002163 conserved gate region; other site 311402002164 putative PBP binding loops; other site 311402002165 ABC-ATPase subunit interface; other site 311402002166 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402002167 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002168 dimer interface [polypeptide binding]; other site 311402002169 conserved gate region; other site 311402002170 putative PBP binding loops; other site 311402002171 ABC-ATPase subunit interface; other site 311402002172 hypothetical protein; Provisional; Region: PRK07481 311402002173 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402002174 inhibitor-cofactor binding pocket; inhibition site 311402002175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402002176 catalytic residue [active] 311402002177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002178 dimer interface [polypeptide binding]; other site 311402002179 conserved gate region; other site 311402002180 putative PBP binding loops; other site 311402002181 ABC-ATPase subunit interface; other site 311402002182 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402002183 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002184 dimer interface [polypeptide binding]; other site 311402002185 conserved gate region; other site 311402002186 putative PBP binding loops; other site 311402002187 ABC-ATPase subunit interface; other site 311402002188 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402002189 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 311402002190 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402002191 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 311402002192 Walker A/P-loop; other site 311402002193 ATP binding site [chemical binding]; other site 311402002194 Q-loop/lid; other site 311402002195 ABC transporter signature motif; other site 311402002196 Walker B; other site 311402002197 D-loop; other site 311402002198 H-loop/switch region; other site 311402002199 TOBE domain; Region: TOBE_2; pfam08402 311402002200 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 311402002201 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 311402002202 tetramerization interface [polypeptide binding]; other site 311402002203 NAD(P) binding site [chemical binding]; other site 311402002204 catalytic residues [active] 311402002205 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_1; cd08508 311402002206 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402002207 Transcriptional regulator [Transcription]; Region: IclR; COG1414 311402002208 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 311402002209 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402002210 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 311402002211 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 311402002212 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 311402002213 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402002214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402002215 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002216 ABC-ATPase subunit interface; other site 311402002217 putative PBP binding loops; other site 311402002218 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402002219 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002220 putative PBP binding loops; other site 311402002221 dimer interface [polypeptide binding]; other site 311402002222 ABC-ATPase subunit interface; other site 311402002223 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402002224 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402002225 Walker A/P-loop; other site 311402002226 ATP binding site [chemical binding]; other site 311402002227 Q-loop/lid; other site 311402002228 ABC transporter signature motif; other site 311402002229 Walker B; other site 311402002230 D-loop; other site 311402002231 H-loop/switch region; other site 311402002232 TOBE domain; Region: TOBE_2; pfam08402 311402002233 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402002234 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 311402002235 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 311402002236 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 311402002237 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 311402002238 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 311402002239 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 311402002240 Transcriptional regulator [Transcription]; Region: IclR; COG1414 311402002241 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 311402002242 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402002243 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402002244 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002245 dimer interface [polypeptide binding]; other site 311402002246 conserved gate region; other site 311402002247 putative PBP binding loops; other site 311402002248 ABC-ATPase subunit interface; other site 311402002249 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 311402002250 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002251 dimer interface [polypeptide binding]; other site 311402002252 conserved gate region; other site 311402002253 putative PBP binding loops; other site 311402002254 ABC-ATPase subunit interface; other site 311402002255 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402002256 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402002257 Walker A/P-loop; other site 311402002258 ATP binding site [chemical binding]; other site 311402002259 Q-loop/lid; other site 311402002260 ABC transporter signature motif; other site 311402002261 Walker B; other site 311402002262 D-loop; other site 311402002263 H-loop/switch region; other site 311402002264 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402002265 Walker A/P-loop; other site 311402002266 ATP binding site [chemical binding]; other site 311402002267 Q-loop/lid; other site 311402002268 ABC transporter signature motif; other site 311402002269 Walker B; other site 311402002270 D-loop; other site 311402002271 H-loop/switch region; other site 311402002272 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402002273 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 311402002274 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 311402002275 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 311402002276 putative NAD(P) binding site [chemical binding]; other site 311402002277 catalytic Zn binding site [ion binding]; other site 311402002278 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 311402002279 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402002280 NAD binding site [chemical binding]; other site 311402002281 catalytic residues [active] 311402002282 T-DNA (T4) left border 311402002283 RolB/RolC glucosidase family; Region: RolB_RolC; pfam02027 311402002284 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 311402002285 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 311402002286 T-DNA (T4) right border 311402002287 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 311402002288 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 311402002289 DNA binding residues [nucleotide binding] 311402002290 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402002291 P-loop; other site 311402002292 Magnesium ion binding site [ion binding]; other site 311402002293 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 311402002294 ParB-like nuclease domain; Region: ParB; smart00470 311402002295 replication initiation protein RepC; Provisional; Region: PRK13824 311402002296 Replication protein C N-terminal domain; Region: RP-C; pfam03428 311402002297 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 311402002298 Homeodomain-like domain; Region: HTH_23; pfam13384 311402002299 Winged helix-turn helix; Region: HTH_29; pfam13551 311402002300 Homeodomain-like domain; Region: HTH_32; pfam13565 311402002301 DDE superfamily endonuclease; Region: DDE_3; pfam13358 311402002302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 311402002303 Agrobacterium VirD5 protein; Region: Agro_virD5; cl10634 311402002304 type IV secretion system protein VirD4; Provisional; Region: PRK13850 311402002305 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 311402002306 Walker A motif; other site 311402002307 ATP binding site [chemical binding]; other site 311402002308 Walker B motif; other site 311402002309 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 311402002310 type IV secretion system T-DNA border endonuclease VirD1; Provisional; Region: PRK13858 311402002311 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 311402002312 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402002313 P-loop; other site 311402002314 Magnesium ion binding site [ion binding]; other site 311402002315 putative crown gall tumor protein VirC2; Provisional; Region: PRK13862 311402002316 two-component response regulator VirG; Provisional; Region: PRK13856 311402002317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402002318 active site 311402002319 phosphorylation site [posttranslational modification] 311402002320 intermolecular recognition site; other site 311402002321 dimerization interface [polypeptide binding]; other site 311402002322 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402002323 DNA binding site [nucleotide binding] 311402002324 type IV secretion system protein VirB11; Provisional; Region: PRK13851 311402002325 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 311402002326 Walker A motif; other site 311402002327 hexamer interface [polypeptide binding]; other site 311402002328 ATP binding site [chemical binding]; other site 311402002329 Walker B motif; other site 311402002330 type IV secretion system protein VirB10; Provisional; Region: PRK13855 311402002331 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 311402002332 VirB7 interaction site; other site 311402002333 type IV secretion system protein VirB8; Provisional; Region: PRK13865 311402002334 type IV secretion system lipoprotein VirB7; Provisional; Region: PRK13859 311402002335 type IV secretion system protein VirB6; Provisional; Region: PRK13852 311402002336 type IV secretion system protein VirB5; Provisional; Region: PRK13860 311402002337 type IV secretion system protein VirB4; Provisional; Region: PRK13853 311402002338 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 311402002339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402002340 Walker A/P-loop; other site 311402002341 ATP binding site [chemical binding]; other site 311402002342 Q-loop/lid; other site 311402002343 ABC transporter signature motif; other site 311402002344 type IV secretion system protein VirB3; Provisional; Region: PRK13854 311402002345 type IV secretion system pilin subunit VirB2; Provisional; Region: PRK13857 311402002346 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402002347 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402002348 catalytic residue [active] 311402002349 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402002350 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402002351 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 311402002352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402002353 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 311402002354 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402002355 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 311402002356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402002357 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402002358 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402002359 Transposase; Region: HTH_Tnp_1; pfam01527 311402002360 VirE3; Region: VirE3; pfam06661 311402002361 type IV secretion system single-stranded DNA binding protein VirE2; Provisional; Region: PRK13868 311402002362 type IV secretion system chaperone VirE1; Provisional; Region: PRK13867 311402002363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402002364 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402002365 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 311402002366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402002367 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 311402002368 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402002369 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 311402002370 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 311402002371 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402002372 dimer interface [polypeptide binding]; other site 311402002373 phosphorylation site [posttranslational modification] 311402002374 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402002375 ATP binding site [chemical binding]; other site 311402002376 Mg2+ binding site [ion binding]; other site 311402002377 G-X-G motif; other site 311402002378 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 311402002379 active site 311402002380 phosphorylation site [posttranslational modification] 311402002381 intermolecular recognition site; other site 311402002382 dimerization interface [polypeptide binding]; other site 311402002383 Cytochrome P450; Region: p450; cl12078 311402002384 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 311402002385 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 311402002386 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 311402002387 Int/Topo IB signature motif; other site 311402002388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 311402002389 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 311402002390 Integrase core domain; Region: rve; pfam00665 311402002391 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 311402002392 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 311402002393 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 311402002394 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402002395 DNA binding site [nucleotide binding] 311402002396 active site 311402002397 Int/Topo IB signature motif; other site 311402002398 DDE superfamily endonuclease; Region: DDE_3; pfam13358 311402002399 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402002400 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402002401 integron integrase; Region: integrase_gron; TIGR02249 311402002402 active site 311402002403 DNA binding site [nucleotide binding] 311402002404 Int/Topo IB signature motif; other site 311402002405 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 311402002406 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 311402002407 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 311402002408 Int/Topo IB signature motif; other site 311402002409 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 311402002410 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 311402002411 putative active site [active] 311402002412 putative NTP binding site [chemical binding]; other site 311402002413 putative nucleic acid binding site [nucleotide binding]; other site 311402002414 Protein of unknown function (DUF2699); Region: DUF2699; pfam10919 311402002415 Transposase; Region: HTH_Tnp_1; cl17663 311402002416 T-DNA (T1) left border 311402002417 RolB/RolC glucosidase family; Region: RolB_RolC; pfam02027 311402002418 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 311402002419 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 311402002420 T-DNA (T1) right border 311402002421 Transposase; Region: DEDD_Tnp_IS110; pfam01548 311402002422 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 311402002423 nucleotide binding site [chemical binding]; other site 311402002424 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 311402002425 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 311402002426 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402002427 motif II; other site 311402002428 Transposase; Region: HTH_Tnp_1; pfam01527 311402002429 Transposase, Mutator family; Region: Transposase_mut; pfam00872 311402002430 MULE transposase domain; Region: MULE; pfam10551 311402002431 T-DNA (T2) left border 311402002432 indole acetimide hydrolase; Validated; Region: PRK07488 311402002433 Amidase; Region: Amidase; pfam01425 311402002434 RolB/RolC glucosidase family; Region: RolB_RolC; pfam02027 311402002435 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402002436 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 311402002437 T-DNA (T2) right border 311402002438 DDE superfamily endonuclease; Region: DDE_3; pfam13358 311402002439 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 311402002440 T-DNA (T3) left border 311402002441 Isopentenyl transferase; Region: IPT; pfam01745 311402002442 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 311402002443 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 311402002444 T-DNA (T3) right border 311402002445 transcriptional regulator TraR; Provisional; Region: PRK13870 311402002446 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402002447 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402002448 DNA binding residues [nucleotide binding] 311402002449 dimerization interface [polypeptide binding]; other site 311402002450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 311402002451 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402002452 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402002453 hydroxyglutarate oxidase; Provisional; Region: PRK11728 311402002454 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402002455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002456 dimer interface [polypeptide binding]; other site 311402002457 conserved gate region; other site 311402002458 putative PBP binding loops; other site 311402002459 ABC-ATPase subunit interface; other site 311402002460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002461 dimer interface [polypeptide binding]; other site 311402002462 conserved gate region; other site 311402002463 putative PBP binding loops; other site 311402002464 ABC-ATPase subunit interface; other site 311402002465 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402002466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402002467 Walker A/P-loop; other site 311402002468 ATP binding site [chemical binding]; other site 311402002469 Q-loop/lid; other site 311402002470 ABC transporter signature motif; other site 311402002471 Walker B; other site 311402002472 D-loop; other site 311402002473 H-loop/switch region; other site 311402002474 TOBE domain; Region: TOBE_2; pfam08402 311402002475 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 311402002476 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402002477 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 311402002478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402002479 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 311402002480 putative dimerization interface [polypeptide binding]; other site 311402002481 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402002482 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402002483 Walker A/P-loop; other site 311402002484 ATP binding site [chemical binding]; other site 311402002485 Q-loop/lid; other site 311402002486 ABC transporter signature motif; other site 311402002487 Walker B; other site 311402002488 D-loop; other site 311402002489 H-loop/switch region; other site 311402002490 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402002491 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402002492 Walker A/P-loop; other site 311402002493 ATP binding site [chemical binding]; other site 311402002494 Q-loop/lid; other site 311402002495 ABC transporter signature motif; other site 311402002496 Walker B; other site 311402002497 D-loop; other site 311402002498 H-loop/switch region; other site 311402002499 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 311402002500 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402002501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002502 dimer interface [polypeptide binding]; other site 311402002503 conserved gate region; other site 311402002504 putative PBP binding loops; other site 311402002505 ABC-ATPase subunit interface; other site 311402002506 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402002507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002508 dimer interface [polypeptide binding]; other site 311402002509 conserved gate region; other site 311402002510 putative PBP binding loops; other site 311402002511 ABC-ATPase subunit interface; other site 311402002512 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402002513 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_11; cd08516 311402002514 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 311402002515 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 311402002516 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 311402002517 homotrimer interaction site [polypeptide binding]; other site 311402002518 putative active site [active] 311402002519 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 311402002520 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 311402002521 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 311402002522 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 311402002523 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402002524 hydroxyglutarate oxidase; Provisional; Region: PRK11728 311402002525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402002526 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 311402002527 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402002528 dimerization interface [polypeptide binding]; other site 311402002529 conjugal transfer protein TrbI; Provisional; Region: PRK13831 311402002530 conjugal transfer protein TrbH; Provisional; Region: PRK13835 311402002531 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 311402002532 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 311402002533 VirB7 interaction site; other site 311402002534 conjugal transfer protein TrbF; Provisional; Region: PRK13836 311402002535 conjugal transfer protein TrbL; Provisional; Region: PRK13841 311402002536 Protein of unknown function (DUF2749); Region: DUF2749; pfam10907 311402002537 conjugal transfer protein TrbJ; Provisional; Region: PRK13842 311402002538 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 311402002539 conjugal transfer protein TrbE; Provisional; Region: PRK13830 311402002540 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 311402002541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402002542 Walker A/P-loop; other site 311402002543 ATP binding site [chemical binding]; other site 311402002544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402002545 Walker B; other site 311402002546 D-loop; other site 311402002547 H-loop/switch region; other site 311402002548 conjugal transfer protein TrbD; Provisional; Region: PRK13823 311402002549 conjugal transfer protein TrbC; Provisional; Region: PRK13871 311402002550 conjugal transfer protein TrbB; Provisional; Region: PRK13833 311402002551 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 311402002552 ATP binding site [chemical binding]; other site 311402002553 Walker A motif; other site 311402002554 hexamer interface [polypeptide binding]; other site 311402002555 Walker B motif; other site 311402002556 putative autoinducer synthesis protein; Provisional; Region: PRK13834 311402002557 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 311402002558 MerR family regulatory protein; Region: MerR; pfam00376 311402002559 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402002560 P-loop; other site 311402002561 Magnesium ion binding site [ion binding]; other site 311402002562 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 311402002563 ParB-like nuclease domain; Region: ParBc; pfam02195 311402002564 replication initiation protein RepC; Provisional; Region: PRK13824 311402002565 Replication protein C N-terminal domain; Region: RP-C; pfam03428 311402002566 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 311402002567 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 311402002568 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 311402002569 catalytic residues [active] 311402002570 catalytic nucleophile [active] 311402002571 Presynaptic Site I dimer interface [polypeptide binding]; other site 311402002572 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 311402002573 Synaptic Flat tetramer interface [polypeptide binding]; other site 311402002574 Synaptic Site I dimer interface [polypeptide binding]; other site 311402002575 DNA binding site [nucleotide binding] 311402002576 PAS domain S-box; Region: sensory_box; TIGR00229 311402002577 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402002578 putative active site [active] 311402002579 heme pocket [chemical binding]; other site 311402002580 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402002581 HWE histidine kinase; Region: HWE_HK; smart00911 311402002582 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 311402002583 DNA binding site [nucleotide binding] 311402002584 dimer interface [polypeptide binding]; other site 311402002585 Int/Topo IB signature motif; other site 311402002586 active site 311402002587 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 311402002588 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 311402002589 Protein of unknown function (DUF3072); Region: DUF3072; pfam11272 311402002590 Protein of unknown function DUF72; Region: DUF72; pfam01904 311402002591 Transposase; Region: HTH_Tnp_1; cl17663 311402002592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402002593 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402002594 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402002595 PAS domain; Region: PAS_9; pfam13426 311402002596 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402002597 Histidine kinase; Region: HisKA_2; pfam07568 311402002598 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402002599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402002600 active site 311402002601 phosphorylation site [posttranslational modification] 311402002602 intermolecular recognition site; other site 311402002603 dimerization interface [polypeptide binding]; other site 311402002604 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 311402002605 catalytic triad [active] 311402002606 conserved cis-peptide bond; other site 311402002607 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402002608 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 311402002609 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 311402002610 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 311402002611 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 311402002612 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 311402002613 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 311402002614 nudix motif; other site 311402002615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402002616 Integrase core domain; Region: rve; pfam00665 311402002617 PAS fold; Region: PAS_4; pfam08448 311402002618 PAS fold; Region: PAS_3; pfam08447 311402002619 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402002620 putative active site [active] 311402002621 heme pocket [chemical binding]; other site 311402002622 PAS domain S-box; Region: sensory_box; TIGR00229 311402002623 PAS domain; Region: PAS; smart00091 311402002624 PAS domain S-box; Region: sensory_box; TIGR00229 311402002625 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402002626 putative active site [active] 311402002627 heme pocket [chemical binding]; other site 311402002628 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402002629 dimer interface [polypeptide binding]; other site 311402002630 phosphorylation site [posttranslational modification] 311402002631 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402002632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402002633 Integrase core domain; Region: rve; pfam00665 311402002634 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 311402002635 dimerization interface [polypeptide binding]; other site 311402002636 metal binding site [ion binding]; metal-binding site 311402002637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402002638 phosphorylation site [posttranslational modification] 311402002639 intermolecular recognition site; other site 311402002640 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402002641 MarR family; Region: MarR_2; pfam12802 311402002642 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 311402002643 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 311402002644 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 311402002645 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 311402002646 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 311402002647 HipA N-terminal domain; Region: Couple_hipA; cl11853 311402002648 HipA-like N-terminal domain; Region: HipA_N; pfam07805 311402002649 HipA-like C-terminal domain; Region: HipA_C; pfam07804 311402002650 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402002651 non-specific DNA binding site [nucleotide binding]; other site 311402002652 salt bridge; other site 311402002653 sequence-specific DNA binding site [nucleotide binding]; other site 311402002654 Protein of unknown function DUF72; Region: DUF72; pfam01904 311402002655 Protein of unknown function (DUF3072); Region: DUF3072; pfam11272 311402002656 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402002657 HAMP domain; Region: HAMP; pfam00672 311402002658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402002659 dimer interface [polypeptide binding]; other site 311402002660 putative CheW interface [polypeptide binding]; other site 311402002661 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 311402002662 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402002663 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 311402002664 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402002665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402002666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402002667 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402002668 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 311402002669 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 311402002670 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402002671 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402002672 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 311402002673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402002674 dimer interface [polypeptide binding]; other site 311402002675 putative CheW interface [polypeptide binding]; other site 311402002676 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402002677 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311402002678 putative active site [active] 311402002679 heme pocket [chemical binding]; other site 311402002680 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402002681 putative active site [active] 311402002682 heme pocket [chemical binding]; other site 311402002683 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 311402002684 Transposase; Region: HTH_Tnp_1; cl17663 311402002685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402002686 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 311402002687 GAF domain; Region: GAF; pfam01590 311402002688 Phytochrome region; Region: PHY; pfam00360 311402002689 HWE histidine kinase; Region: HWE_HK; pfam07536 311402002690 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402002691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402002692 active site 311402002693 phosphorylation site [posttranslational modification] 311402002694 intermolecular recognition site; other site 311402002695 dimerization interface [polypeptide binding]; other site 311402002696 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402002697 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402002698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402002699 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 311402002700 dimerization interface [polypeptide binding]; other site 311402002701 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402002702 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402002703 dimer interface [polypeptide binding]; other site 311402002704 putative CheW interface [polypeptide binding]; other site 311402002705 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402002706 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402002707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402002708 Transposase; Region: HTH_Tnp_1; pfam01527 311402002709 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402002710 active site 311402002711 phosphorylation site [posttranslational modification] 311402002712 intermolecular recognition site; other site 311402002713 dimerization interface [polypeptide binding]; other site 311402002714 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402002715 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402002716 dimer interface [polypeptide binding]; other site 311402002717 phosphorylation site [posttranslational modification] 311402002718 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402002719 ATP binding site [chemical binding]; other site 311402002720 Mg2+ binding site [ion binding]; other site 311402002721 G-X-G motif; other site 311402002722 CheB methylesterase; Region: CheB_methylest; pfam01339 311402002723 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 311402002724 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 311402002725 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 311402002726 CHASE3 domain; Region: CHASE3; pfam05227 311402002727 GAF domain; Region: GAF_3; pfam13492 311402002728 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402002729 dimer interface [polypeptide binding]; other site 311402002730 phosphorylation site [posttranslational modification] 311402002731 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402002732 ATP binding site [chemical binding]; other site 311402002733 Mg2+ binding site [ion binding]; other site 311402002734 G-X-G motif; other site 311402002735 Response regulator receiver domain; Region: Response_reg; pfam00072 311402002736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402002737 active site 311402002738 phosphorylation site [posttranslational modification] 311402002739 intermolecular recognition site; other site 311402002740 dimerization interface [polypeptide binding]; other site 311402002741 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402002742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402002743 active site 311402002744 phosphorylation site [posttranslational modification] 311402002745 intermolecular recognition site; other site 311402002746 dimerization interface [polypeptide binding]; other site 311402002747 Response regulator receiver domain; Region: Response_reg; pfam00072 311402002748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402002749 active site 311402002750 phosphorylation site [posttranslational modification] 311402002751 intermolecular recognition site; other site 311402002752 dimerization interface [polypeptide binding]; other site 311402002753 Heat induced stress protein YflT; Region: YflT; pfam11181 311402002754 Protein of unknown function (DUF433); Region: DUF433; pfam04255 311402002755 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 311402002756 oligomeric interface; other site 311402002757 putative active site [active] 311402002758 homodimer interface [polypeptide binding]; other site 311402002759 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 311402002760 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402002761 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 311402002762 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 311402002763 ThiF family; Region: ThiF; pfam00899 311402002764 ATP binding site [chemical binding]; other site 311402002765 pyruvate kinase; Provisional; Region: PRK06247 311402002766 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 311402002767 domain interfaces; other site 311402002768 active site 311402002769 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 311402002770 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 311402002771 MOFRL family; Region: MOFRL; pfam05161 311402002772 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 311402002773 tartrate dehydrogenase; Region: TTC; TIGR02089 311402002774 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402002775 D-galactonate transporter; Region: 2A0114; TIGR00893 311402002776 putative substrate translocation pore; other site 311402002777 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 311402002778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402002779 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 311402002780 dimerization interface [polypeptide binding]; other site 311402002781 substrate binding pocket [chemical binding]; other site 311402002782 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 311402002783 AAA domain; Region: AAA_33; pfam13671 311402002784 ATP-binding site [chemical binding]; other site 311402002785 Gluconate-6-phosphate binding site [chemical binding]; other site 311402002786 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 311402002787 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 311402002788 NADP binding site [chemical binding]; other site 311402002789 homodimer interface [polypeptide binding]; other site 311402002790 active site 311402002791 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402002792 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402002793 Walker A/P-loop; other site 311402002794 ATP binding site [chemical binding]; other site 311402002795 Q-loop/lid; other site 311402002796 ABC transporter signature motif; other site 311402002797 Walker B; other site 311402002798 D-loop; other site 311402002799 H-loop/switch region; other site 311402002800 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402002801 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402002802 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402002803 TM-ABC transporter signature motif; other site 311402002804 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 311402002805 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402002806 ligand binding site [chemical binding]; other site 311402002807 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 311402002808 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 311402002809 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 311402002810 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 311402002811 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 311402002812 aminotransferase; Provisional; Region: PRK06105 311402002813 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402002814 inhibitor-cofactor binding pocket; inhibition site 311402002815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402002816 catalytic residue [active] 311402002817 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402002818 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402002819 DNA binding site [nucleotide binding] 311402002820 domain linker motif; other site 311402002821 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 311402002822 dimerization interface [polypeptide binding]; other site 311402002823 ligand binding site [chemical binding]; other site 311402002824 Transposase; Region: DEDD_Tnp_IS110; pfam01548 311402002825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 311402002826 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 311402002827 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402002828 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402002829 Integrase core domain; Region: rve; pfam00665 311402002830 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 311402002831 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402002832 Walker A/P-loop; other site 311402002833 ATP binding site [chemical binding]; other site 311402002834 Q-loop/lid; other site 311402002835 ABC transporter signature motif; other site 311402002836 Walker B; other site 311402002837 D-loop; other site 311402002838 H-loop/switch region; other site 311402002839 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402002840 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402002841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002842 dimer interface [polypeptide binding]; other site 311402002843 conserved gate region; other site 311402002844 putative PBP binding loops; other site 311402002845 ABC-ATPase subunit interface; other site 311402002846 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402002847 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402002848 Walker A/P-loop; other site 311402002849 ATP binding site [chemical binding]; other site 311402002850 Q-loop/lid; other site 311402002851 ABC transporter signature motif; other site 311402002852 Walker B; other site 311402002853 D-loop; other site 311402002854 H-loop/switch region; other site 311402002855 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402002856 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402002857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002858 dimer interface [polypeptide binding]; other site 311402002859 conserved gate region; other site 311402002860 putative PBP binding loops; other site 311402002861 ABC-ATPase subunit interface; other site 311402002862 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402002863 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_11; cd08516 311402002864 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 311402002865 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402002866 DNA-binding site [nucleotide binding]; DNA binding site 311402002867 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 311402002868 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 311402002869 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 311402002870 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 311402002871 dimer interface [polypeptide binding]; other site 311402002872 active site 311402002873 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402002874 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 311402002875 substrate binding site [chemical binding]; other site 311402002876 ATP binding site [chemical binding]; other site 311402002877 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 311402002878 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 311402002879 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 311402002880 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 311402002881 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 311402002882 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 311402002883 Domain of unknown function DUF108; Region: DUF108; pfam01958 311402002884 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 311402002885 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 311402002886 tetramer interface [polypeptide binding]; other site 311402002887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402002888 catalytic residue [active] 311402002889 aspartate aminotransferase; Provisional; Region: PRK06207 311402002890 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402002891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402002892 homodimer interface [polypeptide binding]; other site 311402002893 catalytic residue [active] 311402002894 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cl00425 311402002895 dimer interface [polypeptide binding]; other site 311402002896 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cl00425 311402002897 phosphate binding site [ion binding]; other site 311402002898 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 311402002899 generic binding surface I; other site 311402002900 generic binding surface II; other site 311402002901 CHC2 zinc finger; Region: zf-CHC2; cl17510 311402002902 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 311402002903 Toprim-like; Region: Toprim_2; pfam13155 311402002904 active site 311402002905 metal binding site [ion binding]; metal-binding site 311402002906 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 311402002907 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 311402002908 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 311402002909 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402002910 S-adenosylmethionine binding site [chemical binding]; other site 311402002911 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 311402002912 DEAD-like helicases superfamily; Region: DEXDc; smart00487 311402002913 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 311402002914 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 311402002915 helicase superfamily c-terminal domain; Region: HELICc; smart00490 311402002916 plasmid partitioning protein; Provisional; Region: PRK13832 311402002917 ParB-like nuclease domain; Region: ParB; smart00470 311402002918 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 311402002919 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 311402002920 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 311402002921 Ligand Binding Site [chemical binding]; other site 311402002922 Uncharacterized conserved protein [Function unknown]; Region: COG5489 311402002923 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 311402002924 IHF dimer interface [polypeptide binding]; other site 311402002925 IHF - DNA interface [nucleotide binding]; other site 311402002926 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 311402002927 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 311402002928 Catalytic site; other site 311402002929 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 311402002930 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 311402002931 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 311402002932 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 311402002933 Walker A motif; other site 311402002934 ATP binding site [chemical binding]; other site 311402002935 Walker B motif; other site 311402002936 conjugal transfer protein TraD; Provisional; Region: PRK13847 311402002937 conjugal transfer protein TraC; Provisional; Region: PRK13848 311402002938 Dtr system oriT relaxase; Provisional; Region: PRK13826 311402002939 MobA/MobL family; Region: MobA_MobL; pfam03389 311402002940 AAA domain; Region: AAA_30; pfam13604 311402002941 Family description; Region: UvrD_C_2; pfam13538 311402002942 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 311402002943 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 311402002944 conjugal transfer protein TraB; Provisional; Region: PRK13825 311402002945 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 311402002946 active site 311402002947 catalytic triad [active] 311402002948 dimer interface [polypeptide binding]; other site 311402002949 conjugal transfer protein TraH; Provisional; Region: PRK13843 311402002950 Prokaryotic Transcriptional repressor TraM; Region: Prok-TraM; pfam09228 311402002951 transcriptional regulator TraR; Provisional; Region: PRK13870 311402002952 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402002953 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402002954 DNA binding residues [nucleotide binding] 311402002955 dimerization interface [polypeptide binding]; other site 311402002956 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 311402002957 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402002958 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402002959 Walker A/P-loop; other site 311402002960 ATP binding site [chemical binding]; other site 311402002961 Q-loop/lid; other site 311402002962 ABC transporter signature motif; other site 311402002963 Walker B; other site 311402002964 D-loop; other site 311402002965 H-loop/switch region; other site 311402002966 TOBE domain; Region: TOBE_2; pfam08402 311402002967 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402002968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002969 dimer interface [polypeptide binding]; other site 311402002970 conserved gate region; other site 311402002971 putative PBP binding loops; other site 311402002972 ABC-ATPase subunit interface; other site 311402002973 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402002974 dimer interface [polypeptide binding]; other site 311402002975 conserved gate region; other site 311402002976 putative PBP binding loops; other site 311402002977 ABC-ATPase subunit interface; other site 311402002978 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402002979 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402002980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402002981 DNA-binding site [nucleotide binding]; DNA binding site 311402002982 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402002983 Periplasmic binding protein-like domain; Region: Peripla_BP_3; pfam13377 311402002984 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 311402002985 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 311402002986 classical (c) SDRs; Region: SDR_c; cd05233 311402002987 NAD(P) binding site [chemical binding]; other site 311402002988 active site 311402002989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402002990 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402002991 NAD(P) binding site [chemical binding]; other site 311402002992 active site 311402002993 Transposase; Region: DEDD_Tnp_IS110; pfam01548 311402002994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 311402002995 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 311402002996 Transposase; Region: DEDD_Tnp_IS110; pfam01548 311402002997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 311402002998 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 311402002999 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 311402003000 E3 interaction surface; other site 311402003001 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402003002 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402003003 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 311402003004 Walker A/P-loop; other site 311402003005 ATP binding site [chemical binding]; other site 311402003006 Q-loop/lid; other site 311402003007 ABC transporter signature motif; other site 311402003008 Walker B; other site 311402003009 D-loop; other site 311402003010 H-loop/switch region; other site 311402003011 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 311402003012 Walker A/P-loop; other site 311402003013 ATP binding site [chemical binding]; other site 311402003014 Q-loop/lid; other site 311402003015 ABC transporter signature motif; other site 311402003016 Walker B; other site 311402003017 D-loop; other site 311402003018 H-loop/switch region; other site 311402003019 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 311402003020 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 311402003021 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 311402003022 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 311402003023 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 311402003024 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 311402003025 ligand binding site [chemical binding]; other site 311402003026 homodimer interface [polypeptide binding]; other site 311402003027 NAD(P) binding site [chemical binding]; other site 311402003028 trimer interface B [polypeptide binding]; other site 311402003029 trimer interface A [polypeptide binding]; other site 311402003030 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 311402003031 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 311402003032 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 311402003033 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 311402003034 NAD(P) binding site [chemical binding]; other site 311402003035 catalytic residues [active] 311402003036 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 311402003037 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 311402003038 NAD binding site [chemical binding]; other site 311402003039 substrate binding site [chemical binding]; other site 311402003040 catalytic Zn binding site [ion binding]; other site 311402003041 tetramer interface [polypeptide binding]; other site 311402003042 structural Zn binding site [ion binding]; other site 311402003043 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402003044 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402003045 putative DNA binding site [nucleotide binding]; other site 311402003046 putative Zn2+ binding site [ion binding]; other site 311402003047 hypothetical protein; Provisional; Region: PRK06184 311402003048 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402003049 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402003050 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402003051 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311402003052 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402003053 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 311402003054 tetracycline repressor protein TetR; Provisional; Region: PRK13756 311402003055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402003056 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 311402003057 hypothetical protein; Provisional; Region: PRK06847 311402003058 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402003059 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402003060 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311402003061 Walker A/P-loop; other site 311402003062 ATP binding site [chemical binding]; other site 311402003063 Q-loop/lid; other site 311402003064 ABC transporter signature motif; other site 311402003065 Walker B; other site 311402003066 D-loop; other site 311402003067 H-loop/switch region; other site 311402003068 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003069 dimer interface [polypeptide binding]; other site 311402003070 conserved gate region; other site 311402003071 putative PBP binding loops; other site 311402003072 ABC-ATPase subunit interface; other site 311402003073 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003074 dimer interface [polypeptide binding]; other site 311402003075 conserved gate region; other site 311402003076 putative PBP binding loops; other site 311402003077 ABC-ATPase subunit interface; other site 311402003078 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402003079 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402003080 substrate binding pocket [chemical binding]; other site 311402003081 membrane-bound complex binding site; other site 311402003082 hinge residues; other site 311402003083 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402003084 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402003085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402003086 DNA-binding site [nucleotide binding]; DNA binding site 311402003087 FCD domain; Region: FCD; pfam07729 311402003088 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 311402003089 Ligand binding site [chemical binding]; other site 311402003090 Electron transfer flavoprotein domain; Region: ETF; pfam01012 311402003091 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 311402003092 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 311402003093 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 311402003094 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 311402003095 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 311402003096 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 311402003097 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 311402003098 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 311402003099 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 311402003100 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 311402003101 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402003102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402003103 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402003104 dimerization interface [polypeptide binding]; other site 311402003105 conjugal transfer protein TrbI; Provisional; Region: PRK13831 311402003106 conjugal transfer protein TrbH; Provisional; Region: PRK13835 311402003107 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 311402003108 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 311402003109 VirB7 interaction site; other site 311402003110 conjugal transfer protein TrbF; Provisional; Region: PRK13836 311402003111 conjugal transfer protein TrbL; Provisional; Region: PRK13841 311402003112 entry exclusion protein TrbK, Ti-type; Region: TrbK_Ti; TIGR04361 311402003113 conjugal transfer protein TrbJ; Provisional; Region: PRK13842 311402003114 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 311402003115 conjugal transfer protein TrbE; Provisional; Region: PRK13830 311402003116 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 311402003117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402003118 Walker A/P-loop; other site 311402003119 ATP binding site [chemical binding]; other site 311402003120 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402003121 Walker B; other site 311402003122 H-loop/switch region; other site 311402003123 conjugal transfer protein TrbD; Provisional; Region: PRK13823 311402003124 conjugal transfer protein TrbC; Provisional; Region: PRK13871 311402003125 conjugal transfer protein TrbB; Provisional; Region: PRK13833 311402003126 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 311402003127 ATP binding site [chemical binding]; other site 311402003128 Walker A motif; other site 311402003129 hexamer interface [polypeptide binding]; other site 311402003130 Walker B motif; other site 311402003131 putative autoinducer synthesis protein; Provisional; Region: PRK13834 311402003132 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 311402003133 MerR family regulatory protein; Region: MerR; pfam00376 311402003134 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402003135 P-loop; other site 311402003136 Magnesium ion binding site [ion binding]; other site 311402003137 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402003138 Magnesium ion binding site [ion binding]; other site 311402003139 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 311402003140 ParB-like nuclease domain; Region: ParBc; pfam02195 311402003141 replication initiation protein RepC; Provisional; Region: PRK13824 311402003142 Replication protein C N-terminal domain; Region: RP-C; pfam03428 311402003143 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 311402003144 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402003145 non-specific DNA binding site [nucleotide binding]; other site 311402003146 salt bridge; other site 311402003147 sequence-specific DNA binding site [nucleotide binding]; other site 311402003148 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 311402003149 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402003150 P-loop; other site 311402003151 Magnesium ion binding site [ion binding]; other site 311402003152 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 311402003153 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 311402003154 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 311402003155 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311402003156 Walker A motif; other site 311402003157 ATP binding site [chemical binding]; other site 311402003158 Walker B motif; other site 311402003159 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 311402003160 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 311402003161 Walker A motif; other site 311402003162 hexamer interface [polypeptide binding]; other site 311402003163 ATP binding site [chemical binding]; other site 311402003164 Walker B motif; other site 311402003165 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 311402003166 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 311402003167 VirB7 interaction site; other site 311402003168 VirB8 protein; Region: VirB8; pfam04335 311402003169 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 311402003170 Type IV secretion system proteins; Region: T4SS; pfam07996 311402003171 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 311402003172 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402003173 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402003174 catalytic residue [active] 311402003175 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 311402003176 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 311402003177 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 311402003178 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 311402003179 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402003180 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402003181 catalytic residue [active] 311402003182 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 311402003183 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 311402003184 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 311402003185 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 311402003186 Catalytic site; other site 311402003187 multiple promoter invertase; Provisional; Region: mpi; PRK13413 311402003188 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 311402003189 catalytic residues [active] 311402003190 catalytic nucleophile [active] 311402003191 Presynaptic Site I dimer interface [polypeptide binding]; other site 311402003192 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 311402003193 Synaptic Flat tetramer interface [polypeptide binding]; other site 311402003194 Synaptic Site I dimer interface [polypeptide binding]; other site 311402003195 DNA binding site [nucleotide binding] 311402003196 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 311402003197 DNA-binding interface [nucleotide binding]; DNA binding site 311402003198 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 311402003199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 311402003200 Integrase core domain; Region: rve; pfam00665 311402003201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 311402003202 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 311402003203 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 311402003204 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402003205 Walker A motif; other site 311402003206 ATP binding site [chemical binding]; other site 311402003207 Walker B motif; other site 311402003208 arginine finger; other site 311402003209 Transposase; Region: HTH_Tnp_1; pfam01527 311402003210 putative transposase OrfB; Reviewed; Region: PHA02517 311402003211 HTH-like domain; Region: HTH_21; pfam13276 311402003212 Integrase core domain; Region: rve; pfam00665 311402003213 Integrase core domain; Region: rve_3; pfam13683 311402003214 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 311402003215 cyclase homology domain; Region: CHD; cd07302 311402003216 nucleotidyl binding site; other site 311402003217 metal binding site [ion binding]; metal-binding site 311402003218 dimer interface [polypeptide binding]; other site 311402003219 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 311402003220 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 311402003221 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 311402003222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402003223 active site 311402003224 phosphorylation site [posttranslational modification] 311402003225 intermolecular recognition site; other site 311402003226 dimerization interface [polypeptide binding]; other site 311402003227 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402003228 DNA binding site [nucleotide binding] 311402003229 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402003230 HAMP domain; Region: HAMP; pfam00672 311402003231 dimerization interface [polypeptide binding]; other site 311402003232 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402003233 ATP binding site [chemical binding]; other site 311402003234 Mg2+ binding site [ion binding]; other site 311402003235 G-X-G motif; other site 311402003236 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 311402003237 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 311402003238 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 311402003239 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 311402003240 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 311402003241 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 311402003242 Domain of unknown function (DUF305); Region: DUF305; cl17794 311402003243 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 311402003244 dimerization interface [polypeptide binding]; other site 311402003245 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 311402003246 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 311402003247 Soluble P-type ATPase [General function prediction only]; Region: COG4087 311402003248 Cytochrome C' Region: Cytochrom_C_2; pfam01322 311402003249 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 311402003250 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 311402003251 DNA binding residues [nucleotide binding] 311402003252 dimer interface [polypeptide binding]; other site 311402003253 copper binding site [ion binding]; other site 311402003254 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 311402003255 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 311402003256 metal-binding site [ion binding] 311402003257 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 311402003258 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 311402003259 metal-binding site [ion binding] 311402003260 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 311402003261 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402003262 motif II; other site 311402003263 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 311402003264 metal-binding site [ion binding] 311402003265 YtkA-like; Region: YtkA; pfam13115 311402003266 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 311402003267 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402003268 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 311402003269 Predicted metal-binding protein [General function prediction only]; Region: COG3019 311402003270 Restriction endonuclease; Region: Mrr_cat; pfam04471 311402003271 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402003272 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402003273 non-specific DNA binding site [nucleotide binding]; other site 311402003274 salt bridge; other site 311402003275 sequence-specific DNA binding site [nucleotide binding]; other site 311402003276 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 311402003277 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 311402003278 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 311402003279 putative active site [active] 311402003280 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402003281 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 311402003282 ParB-like nuclease domain; Region: ParBc; pfam02195 311402003283 putative transposase OrfB; Reviewed; Region: PHA02517 311402003284 HTH-like domain; Region: HTH_21; pfam13276 311402003285 Integrase core domain; Region: rve; pfam00665 311402003286 Integrase core domain; Region: rve_3; pfam13683 311402003287 Transposase; Region: HTH_Tnp_1; pfam01527 311402003288 Replication protein C N-terminal domain; Region: RP-C; pfam03428 311402003289 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 311402003290 Staphylococcal nuclease homologues; Region: SNc; smart00318 311402003291 Catalytic site; other site 311402003292 Staphylococcal nuclease homologue; Region: SNase; pfam00565 311402003293 Protein of unknown function (DUF736); Region: DUF736; cl02303 311402003294 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 311402003295 Fic/DOC family; Region: Fic; cl00960 311402003296 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 311402003297 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 311402003298 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 311402003299 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402003300 P-loop; other site 311402003301 Magnesium ion binding site [ion binding]; other site 311402003302 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402003303 Magnesium ion binding site [ion binding]; other site 311402003304 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 311402003305 ParB-like nuclease domain; Region: ParB; smart00470 311402003306 replication initiation protein RepC; Provisional; Region: PRK13824 311402003307 Replication protein C N-terminal domain; Region: RP-C; pfam03428 311402003308 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 311402003309 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 311402003310 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 311402003311 putative active site [active] 311402003312 catalytic site [active] 311402003313 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 311402003314 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 311402003315 putative active site [active] 311402003316 putative active site [active] 311402003317 catalytic site [active] 311402003318 catalytic site [active] 311402003319 Predicted integral membrane protein [Function unknown]; Region: COG0392 311402003320 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 311402003321 putative catalytic site [active] 311402003322 putative metal binding site [ion binding]; other site 311402003323 putative phosphate binding site [ion binding]; other site 311402003324 hypothetical protein; Provisional; Region: PRK11171 311402003325 Cupin domain; Region: Cupin_2; pfam07883 311402003326 Cupin domain; Region: Cupin_2; pfam07883 311402003327 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 311402003328 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402003329 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402003330 putative DNA binding site [nucleotide binding]; other site 311402003331 AsnC family; Region: AsnC_trans_reg; pfam01037 311402003332 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 311402003333 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402003334 Walker A/P-loop; other site 311402003335 ATP binding site [chemical binding]; other site 311402003336 Q-loop/lid; other site 311402003337 ABC transporter signature motif; other site 311402003338 Walker B; other site 311402003339 D-loop; other site 311402003340 H-loop/switch region; other site 311402003341 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402003342 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402003343 substrate binding pocket [chemical binding]; other site 311402003344 membrane-bound complex binding site; other site 311402003345 hinge residues; other site 311402003346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003347 dimer interface [polypeptide binding]; other site 311402003348 conserved gate region; other site 311402003349 putative PBP binding loops; other site 311402003350 ABC-ATPase subunit interface; other site 311402003351 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402003352 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003353 dimer interface [polypeptide binding]; other site 311402003354 conserved gate region; other site 311402003355 putative PBP binding loops; other site 311402003356 ABC-ATPase subunit interface; other site 311402003357 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 311402003358 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 311402003359 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402003360 ABC-ATPase subunit interface; other site 311402003361 dimer interface [polypeptide binding]; other site 311402003362 putative PBP binding regions; other site 311402003363 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 311402003364 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 311402003365 putative ligand binding residues [chemical binding]; other site 311402003366 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 311402003367 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 311402003368 Walker A/P-loop; other site 311402003369 ATP binding site [chemical binding]; other site 311402003370 Q-loop/lid; other site 311402003371 ABC transporter signature motif; other site 311402003372 Walker B; other site 311402003373 D-loop; other site 311402003374 H-loop/switch region; other site 311402003375 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 311402003376 amidohydrolase; Region: amidohydrolases; TIGR01891 311402003377 putative metal binding site [ion binding]; other site 311402003378 glycogen synthase; Provisional; Region: glgA; PRK00654 311402003379 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 311402003380 ADP-binding pocket [chemical binding]; other site 311402003381 homodimer interface [polypeptide binding]; other site 311402003382 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 311402003383 GXWXG protein; Region: GXWXG; pfam14231 311402003384 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 311402003385 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 311402003386 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 311402003387 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 311402003388 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 311402003389 putative NAD(P) binding site [chemical binding]; other site 311402003390 catalytic Zn binding site [ion binding]; other site 311402003391 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 311402003392 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 311402003393 putative ligand binding site [chemical binding]; other site 311402003394 NAD binding site [chemical binding]; other site 311402003395 catalytic site [active] 311402003396 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 311402003397 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 311402003398 NADP binding site [chemical binding]; other site 311402003399 homodimer interface [polypeptide binding]; other site 311402003400 active site 311402003401 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 311402003402 AAA domain; Region: AAA_33; pfam13671 311402003403 ATP-binding site [chemical binding]; other site 311402003404 Gluconate-6-phosphate binding site [chemical binding]; other site 311402003405 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 311402003406 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 311402003407 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402003408 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402003409 DNA binding site [nucleotide binding] 311402003410 domain linker motif; other site 311402003411 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 311402003412 putative dimerization interface [polypeptide binding]; other site 311402003413 putative ligand binding site [chemical binding]; other site 311402003414 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 311402003415 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402003416 putative ligand binding site [chemical binding]; other site 311402003417 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402003418 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402003419 TM-ABC transporter signature motif; other site 311402003420 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402003421 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402003422 Walker A/P-loop; other site 311402003423 ATP binding site [chemical binding]; other site 311402003424 Q-loop/lid; other site 311402003425 ABC transporter signature motif; other site 311402003426 Walker B; other site 311402003427 D-loop; other site 311402003428 H-loop/switch region; other site 311402003429 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402003430 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 311402003431 HTH DNA binding domain; Region: HTH_13; pfam11972 311402003432 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 311402003433 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 311402003434 putative ligand binding site [chemical binding]; other site 311402003435 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402003436 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402003437 Walker A/P-loop; other site 311402003438 ATP binding site [chemical binding]; other site 311402003439 Q-loop/lid; other site 311402003440 ABC transporter signature motif; other site 311402003441 Walker B; other site 311402003442 D-loop; other site 311402003443 H-loop/switch region; other site 311402003444 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402003445 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402003446 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402003447 TM-ABC transporter signature motif; other site 311402003448 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402003449 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402003450 TM-ABC transporter signature motif; other site 311402003451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402003452 DNA-binding site [nucleotide binding]; DNA binding site 311402003453 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 311402003454 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 311402003455 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402003456 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 311402003457 NAD(P) binding site [chemical binding]; other site 311402003458 catalytic residues [active] 311402003459 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 311402003460 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402003461 NAD(P) binding site [chemical binding]; other site 311402003462 catalytic residues [active] 311402003463 Helix-turn-helix domain; Region: HTH_18; pfam12833 311402003464 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402003465 hypothetical protein; Validated; Region: PRK08245 311402003466 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 311402003467 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402003468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402003469 ABC-ATPase subunit interface; other site 311402003470 putative PBP binding loops; other site 311402003471 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402003472 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402003473 Walker A/P-loop; other site 311402003474 ATP binding site [chemical binding]; other site 311402003475 Q-loop/lid; other site 311402003476 ABC transporter signature motif; other site 311402003477 Walker B; other site 311402003478 D-loop; other site 311402003479 H-loop/switch region; other site 311402003480 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 311402003481 NMT1-like family; Region: NMT1_2; pfam13379 311402003482 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402003483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402003484 DNA-binding site [nucleotide binding]; DNA binding site 311402003485 FCD domain; Region: FCD; pfam07729 311402003486 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402003487 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402003488 active site 311402003489 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 311402003490 putative FMN binding site [chemical binding]; other site 311402003491 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 311402003492 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 311402003493 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402003494 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 311402003495 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 311402003496 Sulfate transporter family; Region: Sulfate_transp; pfam00916 311402003497 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 311402003498 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 311402003499 Ligand Binding Site [chemical binding]; other site 311402003500 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 311402003501 Ligand Binding Site [chemical binding]; other site 311402003502 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402003503 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402003504 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402003505 TPR repeat; Region: TPR_11; pfam13414 311402003506 binding surface 311402003507 TPR motif; other site 311402003508 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402003509 TPR repeat; Region: TPR_11; pfam13414 311402003510 binding surface 311402003511 TPR motif; other site 311402003512 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402003513 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402003514 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402003515 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402003516 active site 311402003517 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 311402003518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402003519 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402003520 putative substrate translocation pore; other site 311402003521 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 311402003522 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 311402003523 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 311402003524 active site 311402003525 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 311402003526 active site 311402003527 metal binding site [ion binding]; metal-binding site 311402003528 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 311402003529 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 311402003530 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311402003531 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402003532 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 311402003533 nucleoside/Zn binding site; other site 311402003534 dimer interface [polypeptide binding]; other site 311402003535 catalytic motif [active] 311402003536 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402003537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402003538 DNA-binding site [nucleotide binding]; DNA binding site 311402003539 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 311402003540 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402003541 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 311402003542 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 311402003543 beta-galactosidase; Region: BGL; TIGR03356 311402003544 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402003545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003546 dimer interface [polypeptide binding]; other site 311402003547 conserved gate region; other site 311402003548 putative PBP binding loops; other site 311402003549 ABC-ATPase subunit interface; other site 311402003550 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402003551 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402003552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003553 dimer interface [polypeptide binding]; other site 311402003554 conserved gate region; other site 311402003555 putative PBP binding loops; other site 311402003556 ABC-ATPase subunit interface; other site 311402003557 Predicted amidohydrolase [General function prediction only]; Region: COG3964 311402003558 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402003559 active site 311402003560 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 311402003561 homotrimer interaction site [polypeptide binding]; other site 311402003562 putative active site [active] 311402003563 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 311402003564 Transcriptional regulator [Transcription]; Region: IclR; COG1414 311402003565 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402003566 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 311402003567 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 311402003568 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402003569 catalytic residue [active] 311402003570 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 311402003571 PAS fold; Region: PAS_7; pfam12860 311402003572 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402003573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402003574 metal binding site [ion binding]; metal-binding site 311402003575 active site 311402003576 I-site; other site 311402003577 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 311402003578 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 311402003579 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 311402003580 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 311402003581 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 311402003582 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 311402003583 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402003584 catalytic loop [active] 311402003585 iron binding site [ion binding]; other site 311402003586 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 311402003587 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 311402003588 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 311402003589 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 311402003590 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 311402003591 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 311402003592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402003593 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402003594 dimer interface [polypeptide binding]; other site 311402003595 phosphorylation site [posttranslational modification] 311402003596 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402003597 ATP binding site [chemical binding]; other site 311402003598 Mg2+ binding site [ion binding]; other site 311402003599 G-X-G motif; other site 311402003600 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402003601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402003602 active site 311402003603 phosphorylation site [posttranslational modification] 311402003604 intermolecular recognition site; other site 311402003605 dimerization interface [polypeptide binding]; other site 311402003606 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402003607 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402003608 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 311402003609 putative effector binding pocket; other site 311402003610 dimerization interface [polypeptide binding]; other site 311402003611 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 311402003612 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 311402003613 putative active site pocket [active] 311402003614 dimerization interface [polypeptide binding]; other site 311402003615 putative catalytic residue [active] 311402003616 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 311402003617 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311402003618 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 311402003619 classical (c) SDRs; Region: SDR_c; cd05233 311402003620 active site 311402003621 transcription elongation factor regulatory protein; Validated; Region: PRK06342 311402003622 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 311402003623 alpha-galactosidase; Provisional; Region: PRK15076 311402003624 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 311402003625 NAD binding site [chemical binding]; other site 311402003626 sugar binding site [chemical binding]; other site 311402003627 divalent metal binding site [ion binding]; other site 311402003628 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 311402003629 dimer interface [polypeptide binding]; other site 311402003630 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 311402003631 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402003632 Walker A/P-loop; other site 311402003633 ATP binding site [chemical binding]; other site 311402003634 Q-loop/lid; other site 311402003635 ABC transporter signature motif; other site 311402003636 Walker B; other site 311402003637 D-loop; other site 311402003638 H-loop/switch region; other site 311402003639 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402003640 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402003641 Walker A/P-loop; other site 311402003642 ATP binding site [chemical binding]; other site 311402003643 Q-loop/lid; other site 311402003644 ABC transporter signature motif; other site 311402003645 Walker B; other site 311402003646 D-loop; other site 311402003647 H-loop/switch region; other site 311402003648 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402003649 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402003650 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003651 dimer interface [polypeptide binding]; other site 311402003652 conserved gate region; other site 311402003653 putative PBP binding loops; other site 311402003654 ABC-ATPase subunit interface; other site 311402003655 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402003656 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003657 dimer interface [polypeptide binding]; other site 311402003658 conserved gate region; other site 311402003659 putative PBP binding loops; other site 311402003660 ABC-ATPase subunit interface; other site 311402003661 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 311402003662 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402003663 alpha-galactosidase; Provisional; Region: PRK15076 311402003664 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 311402003665 NAD binding site [chemical binding]; other site 311402003666 sugar binding site [chemical binding]; other site 311402003667 divalent metal binding site [ion binding]; other site 311402003668 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 311402003669 dimer interface [polypeptide binding]; other site 311402003670 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 311402003671 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402003672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402003673 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402003674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402003675 active site 311402003676 phosphorylation site [posttranslational modification] 311402003677 intermolecular recognition site; other site 311402003678 dimerization interface [polypeptide binding]; other site 311402003679 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402003680 DNA binding site [nucleotide binding] 311402003681 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402003682 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402003683 ATP binding site [chemical binding]; other site 311402003684 Mg2+ binding site [ion binding]; other site 311402003685 G-X-G motif; other site 311402003686 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 311402003687 HSP70 interaction site [polypeptide binding]; other site 311402003688 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 311402003689 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 311402003690 putative NAD(P) binding site [chemical binding]; other site 311402003691 catalytic Zn binding site [ion binding]; other site 311402003692 structural Zn binding site [ion binding]; other site 311402003693 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 311402003694 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 311402003695 putative active site pocket [active] 311402003696 metal binding site [ion binding]; metal-binding site 311402003697 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 311402003698 Amidohydrolase; Region: Amidohydro_2; pfam04909 311402003699 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402003700 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402003701 active site 311402003702 catalytic tetrad [active] 311402003703 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 311402003704 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 311402003705 putative ligand binding site [chemical binding]; other site 311402003706 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402003707 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402003708 TM-ABC transporter signature motif; other site 311402003709 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402003710 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402003711 Walker A/P-loop; other site 311402003712 ATP binding site [chemical binding]; other site 311402003713 Q-loop/lid; other site 311402003714 ABC transporter signature motif; other site 311402003715 Walker B; other site 311402003716 D-loop; other site 311402003717 H-loop/switch region; other site 311402003718 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402003719 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402003720 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402003721 DNA-binding site [nucleotide binding]; DNA binding site 311402003722 FCD domain; Region: FCD; pfam07729 311402003723 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402003724 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402003725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003726 ABC-ATPase subunit interface; other site 311402003727 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402003728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003729 dimer interface [polypeptide binding]; other site 311402003730 conserved gate region; other site 311402003731 putative PBP binding loops; other site 311402003732 ABC-ATPase subunit interface; other site 311402003733 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402003734 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402003735 Walker A/P-loop; other site 311402003736 ATP binding site [chemical binding]; other site 311402003737 Q-loop/lid; other site 311402003738 ABC transporter signature motif; other site 311402003739 Walker B; other site 311402003740 D-loop; other site 311402003741 H-loop/switch region; other site 311402003742 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 311402003743 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 311402003744 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402003745 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402003746 DNA binding site [nucleotide binding] 311402003747 domain linker motif; other site 311402003748 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 311402003749 dimerization interface [polypeptide binding]; other site 311402003750 ligand binding site [chemical binding]; other site 311402003751 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402003752 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 311402003753 Walker A/P-loop; other site 311402003754 ATP binding site [chemical binding]; other site 311402003755 Q-loop/lid; other site 311402003756 ABC transporter signature motif; other site 311402003757 Walker B; other site 311402003758 D-loop; other site 311402003759 H-loop/switch region; other site 311402003760 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 311402003761 TM-ABC transporter signature motif; other site 311402003762 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 311402003763 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 311402003764 TM-ABC transporter signature motif; other site 311402003765 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 311402003766 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 311402003767 putative ligand binding site [chemical binding]; other site 311402003768 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 311402003769 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 311402003770 Walker A/P-loop; other site 311402003771 ATP binding site [chemical binding]; other site 311402003772 Q-loop/lid; other site 311402003773 ABC transporter signature motif; other site 311402003774 Walker B; other site 311402003775 D-loop; other site 311402003776 H-loop/switch region; other site 311402003777 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402003778 dimerization interface [polypeptide binding]; other site 311402003779 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402003780 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402003781 dimer interface [polypeptide binding]; other site 311402003782 putative CheW interface [polypeptide binding]; other site 311402003783 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402003784 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402003785 active site 311402003786 non-prolyl cis peptide bond; other site 311402003787 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402003788 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402003789 active site 311402003790 non-prolyl cis peptide bond; other site 311402003791 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 311402003792 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402003793 active site 311402003794 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 311402003795 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 311402003796 Flavin binding site [chemical binding]; other site 311402003797 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402003798 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402003799 active site 311402003800 catalytic tetrad [active] 311402003801 Uncharacterized conserved protein [Function unknown]; Region: COG5276 311402003802 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 311402003803 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402003804 putative ligand binding site [chemical binding]; other site 311402003805 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402003806 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402003807 TM-ABC transporter signature motif; other site 311402003808 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402003809 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402003810 Walker A/P-loop; other site 311402003811 ATP binding site [chemical binding]; other site 311402003812 Q-loop/lid; other site 311402003813 ABC transporter signature motif; other site 311402003814 Walker B; other site 311402003815 D-loop; other site 311402003816 H-loop/switch region; other site 311402003817 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402003818 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 311402003819 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402003820 putative ligand binding site [chemical binding]; other site 311402003821 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 311402003822 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 311402003823 homodimer interface [polypeptide binding]; other site 311402003824 substrate-cofactor binding pocket; other site 311402003825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402003826 catalytic residue [active] 311402003827 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 311402003828 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402003829 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402003830 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402003831 Walker A/P-loop; other site 311402003832 ATP binding site [chemical binding]; other site 311402003833 Q-loop/lid; other site 311402003834 ABC transporter signature motif; other site 311402003835 Walker B; other site 311402003836 D-loop; other site 311402003837 H-loop/switch region; other site 311402003838 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402003839 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402003840 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402003841 TM-ABC transporter signature motif; other site 311402003842 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402003843 TM-ABC transporter signature motif; other site 311402003844 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402003845 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402003846 substrate binding pocket [chemical binding]; other site 311402003847 membrane-bound complex binding site; other site 311402003848 hinge residues; other site 311402003849 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402003850 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003851 dimer interface [polypeptide binding]; other site 311402003852 conserved gate region; other site 311402003853 putative PBP binding loops; other site 311402003854 ABC-ATPase subunit interface; other site 311402003855 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402003856 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003857 dimer interface [polypeptide binding]; other site 311402003858 conserved gate region; other site 311402003859 putative PBP binding loops; other site 311402003860 ABC-ATPase subunit interface; other site 311402003861 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402003862 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311402003863 Walker A/P-loop; other site 311402003864 ATP binding site [chemical binding]; other site 311402003865 Q-loop/lid; other site 311402003866 ABC transporter signature motif; other site 311402003867 Walker B; other site 311402003868 D-loop; other site 311402003869 H-loop/switch region; other site 311402003870 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 311402003871 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402003872 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402003873 active site 311402003874 non-prolyl cis peptide bond; other site 311402003875 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 311402003876 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 311402003877 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 311402003878 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 311402003879 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402003880 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402003881 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 311402003882 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 311402003883 dimer interface [polypeptide binding]; other site 311402003884 active site 311402003885 non-prolyl cis peptide bond; other site 311402003886 insertion regions; other site 311402003887 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 311402003888 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 311402003889 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402003890 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402003891 Walker A/P-loop; other site 311402003892 ATP binding site [chemical binding]; other site 311402003893 Q-loop/lid; other site 311402003894 ABC transporter signature motif; other site 311402003895 Walker B; other site 311402003896 D-loop; other site 311402003897 H-loop/switch region; other site 311402003898 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402003899 Walker A/P-loop; other site 311402003900 ATP binding site [chemical binding]; other site 311402003901 Q-loop/lid; other site 311402003902 ABC transporter signature motif; other site 311402003903 Walker B; other site 311402003904 D-loop; other site 311402003905 H-loop/switch region; other site 311402003906 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402003907 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 311402003908 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003909 dimer interface [polypeptide binding]; other site 311402003910 conserved gate region; other site 311402003911 putative PBP binding loops; other site 311402003912 ABC-ATPase subunit interface; other site 311402003913 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402003914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402003915 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402003916 dimer interface [polypeptide binding]; other site 311402003917 conserved gate region; other site 311402003918 putative PBP binding loops; other site 311402003919 ABC-ATPase subunit interface; other site 311402003920 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402003921 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 311402003922 Autotransporter beta-domain; Region: Autotransporter; pfam03797 311402003923 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 311402003924 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311402003925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402003926 active site 311402003927 phosphorylation site [posttranslational modification] 311402003928 intermolecular recognition site; other site 311402003929 dimerization interface [polypeptide binding]; other site 311402003930 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402003931 DNA binding residues [nucleotide binding] 311402003932 dimerization interface [polypeptide binding]; other site 311402003933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402003934 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402003935 dimer interface [polypeptide binding]; other site 311402003936 phosphorylation site [posttranslational modification] 311402003937 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402003938 ATP binding site [chemical binding]; other site 311402003939 Mg2+ binding site [ion binding]; other site 311402003940 G-X-G motif; other site 311402003941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402003942 active site 311402003943 phosphorylation site [posttranslational modification] 311402003944 intermolecular recognition site; other site 311402003945 dimerization interface [polypeptide binding]; other site 311402003946 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 311402003947 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 311402003948 dimer interface [polypeptide binding]; other site 311402003949 active site 311402003950 heme binding site [chemical binding]; other site 311402003951 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 311402003952 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 311402003953 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 311402003954 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 311402003955 inhibitor site; inhibition site 311402003956 active site 311402003957 dimer interface [polypeptide binding]; other site 311402003958 catalytic residue [active] 311402003959 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402003960 D-galactonate transporter; Region: 2A0114; TIGR00893 311402003961 putative substrate translocation pore; other site 311402003962 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402003963 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402003964 DNA binding site [nucleotide binding] 311402003965 domain linker motif; other site 311402003966 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 311402003967 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 311402003968 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402003969 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402003970 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402003971 active site 311402003972 non-prolyl cis peptide bond; other site 311402003973 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 311402003974 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 311402003975 metal binding site [ion binding]; metal-binding site 311402003976 putative dimer interface [polypeptide binding]; other site 311402003977 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 311402003978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402003979 Coenzyme A binding pocket [chemical binding]; other site 311402003980 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402003981 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402003982 substrate binding pocket [chemical binding]; other site 311402003983 membrane-bound complex binding site; other site 311402003984 hinge residues; other site 311402003985 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402003986 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402003987 substrate binding pocket [chemical binding]; other site 311402003988 membrane-bound complex binding site; other site 311402003989 hinge residues; other site 311402003990 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402003991 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 311402003992 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 311402003993 dimerization interface [polypeptide binding]; other site 311402003994 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402003995 dimer interface [polypeptide binding]; other site 311402003996 phosphorylation site [posttranslational modification] 311402003997 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402003998 ATP binding site [chemical binding]; other site 311402003999 Mg2+ binding site [ion binding]; other site 311402004000 G-X-G motif; other site 311402004001 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402004002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402004003 active site 311402004004 phosphorylation site [posttranslational modification] 311402004005 intermolecular recognition site; other site 311402004006 dimerization interface [polypeptide binding]; other site 311402004007 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402004008 DNA binding site [nucleotide binding] 311402004009 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402004010 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402004011 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 311402004012 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 311402004013 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402004014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402004015 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402004016 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402004017 active site 311402004018 non-prolyl cis peptide bond; other site 311402004019 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 311402004020 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402004021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402004022 putative substrate translocation pore; other site 311402004023 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402004024 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402004025 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402004026 active site 311402004027 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 311402004028 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402004029 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402004030 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 311402004031 FAD binding domain; Region: FAD_binding_4; pfam01565 311402004032 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 311402004033 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 311402004034 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 311402004035 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402004036 catalytic residue [active] 311402004037 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 311402004038 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 311402004039 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 311402004040 NAD(P) binding site [chemical binding]; other site 311402004041 catalytic residues [active] 311402004042 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 311402004043 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 311402004044 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 311402004045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402004046 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 311402004047 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 311402004048 N- and C-terminal domain interface [polypeptide binding]; other site 311402004049 active site 311402004050 MgATP binding site [chemical binding]; other site 311402004051 catalytic site [active] 311402004052 metal binding site [ion binding]; metal-binding site 311402004053 xylulose binding site [chemical binding]; other site 311402004054 putative homodimer interface [polypeptide binding]; other site 311402004055 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 311402004056 intersubunit interface [polypeptide binding]; other site 311402004057 active site 311402004058 Zn2+ binding site [ion binding]; other site 311402004059 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 311402004060 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 311402004061 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402004062 catalytic residue [active] 311402004063 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 311402004064 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402004065 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 311402004066 NADP binding site [chemical binding]; other site 311402004067 putative substrate binding site [chemical binding]; other site 311402004068 active site 311402004069 short chain dehydrogenase; Provisional; Region: PRK06181 311402004070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402004071 NAD(P) binding site [chemical binding]; other site 311402004072 active site 311402004073 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 311402004074 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 311402004075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 311402004076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 311402004077 Predicted integral membrane protein [Function unknown]; Region: COG5612 311402004078 RNA polymerase sigma factor; Reviewed; Region: PRK05602 311402004079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402004080 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402004081 DNA binding residues [nucleotide binding] 311402004082 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 311402004083 PhnA protein; Region: PhnA; pfam03831 311402004084 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 311402004085 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 311402004086 Trp docking motif [polypeptide binding]; other site 311402004087 putative active site [active] 311402004088 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311402004089 MarR family; Region: MarR_2; pfam12802 311402004090 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402004091 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402004092 nucleotide binding site [chemical binding]; other site 311402004093 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 311402004094 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402004095 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004096 dimer interface [polypeptide binding]; other site 311402004097 conserved gate region; other site 311402004098 putative PBP binding loops; other site 311402004099 ABC-ATPase subunit interface; other site 311402004100 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402004101 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004102 dimer interface [polypeptide binding]; other site 311402004103 conserved gate region; other site 311402004104 putative PBP binding loops; other site 311402004105 ABC-ATPase subunit interface; other site 311402004106 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402004107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402004108 Walker A/P-loop; other site 311402004109 ATP binding site [chemical binding]; other site 311402004110 Q-loop/lid; other site 311402004111 ABC transporter signature motif; other site 311402004112 Walker B; other site 311402004113 D-loop; other site 311402004114 H-loop/switch region; other site 311402004115 TOBE domain; Region: TOBE_2; pfam08402 311402004116 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 311402004117 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 311402004118 putative active site [active] 311402004119 catalytic site [active] 311402004120 putative metal binding site [ion binding]; other site 311402004121 oligomer interface [polypeptide binding]; other site 311402004122 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402004123 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 311402004124 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 311402004125 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 311402004126 Phage Tail Collar Domain; Region: Collar; pfam07484 311402004127 Putative Ig domain; Region: He_PIG; pfam05345 311402004128 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 311402004129 Interdomain contacts; other site 311402004130 Cytokine receptor motif; other site 311402004131 Putative Ig domain; Region: He_PIG; pfam05345 311402004132 Autotransporter beta-domain; Region: Autotransporter; smart00869 311402004133 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 311402004134 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 311402004135 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 311402004136 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 311402004137 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 311402004138 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311402004139 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 311402004140 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 311402004141 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 311402004142 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311402004143 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 311402004144 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 311402004145 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 311402004146 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 311402004147 putative ligand binding site [chemical binding]; other site 311402004148 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 311402004149 Amidase; Region: Amidase; cl11426 311402004150 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 311402004151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402004152 Walker A/P-loop; other site 311402004153 ATP binding site [chemical binding]; other site 311402004154 Q-loop/lid; other site 311402004155 ABC transporter signature motif; other site 311402004156 Walker B; other site 311402004157 D-loop; other site 311402004158 H-loop/switch region; other site 311402004159 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402004160 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402004161 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402004162 TM-ABC transporter signature motif; other site 311402004163 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402004164 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402004165 TM-ABC transporter signature motif; other site 311402004166 cytosine deaminase; Validated; Region: PRK07572 311402004167 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 311402004168 active site 311402004169 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 311402004170 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402004171 active site 311402004172 Protein of unknown function (DUF4243); Region: DUF4243; pfam14027 311402004173 Creatinine amidohydrolase; Region: Creatininase; pfam02633 311402004174 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 311402004175 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 311402004176 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402004177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004178 dimer interface [polypeptide binding]; other site 311402004179 conserved gate region; other site 311402004180 putative PBP binding loops; other site 311402004181 ABC-ATPase subunit interface; other site 311402004182 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 311402004183 dimer interface [polypeptide binding]; other site 311402004184 conserved gate region; other site 311402004185 ABC-ATPase subunit interface; other site 311402004186 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402004187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402004188 Walker A/P-loop; other site 311402004189 ATP binding site [chemical binding]; other site 311402004190 Q-loop/lid; other site 311402004191 ABC transporter signature motif; other site 311402004192 Walker B; other site 311402004193 D-loop; other site 311402004194 H-loop/switch region; other site 311402004195 TOBE domain; Region: TOBE_2; pfam08402 311402004196 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402004197 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402004198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402004199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402004200 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 311402004201 putative substrate binding pocket [chemical binding]; other site 311402004202 putative dimerization interface [polypeptide binding]; other site 311402004203 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 311402004204 AAA ATPase domain; Region: AAA_16; pfam13191 311402004205 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402004206 DNA binding residues [nucleotide binding] 311402004207 dimerization interface [polypeptide binding]; other site 311402004208 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 311402004209 Amidase; Region: Amidase; pfam01425 311402004210 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402004211 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 311402004212 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402004213 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004214 dimer interface [polypeptide binding]; other site 311402004215 conserved gate region; other site 311402004216 putative PBP binding loops; other site 311402004217 ABC-ATPase subunit interface; other site 311402004218 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 311402004219 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004220 dimer interface [polypeptide binding]; other site 311402004221 conserved gate region; other site 311402004222 ABC-ATPase subunit interface; other site 311402004223 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004224 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 311402004225 Walker A/P-loop; other site 311402004226 ATP binding site [chemical binding]; other site 311402004227 Q-loop/lid; other site 311402004228 ABC transporter signature motif; other site 311402004229 Walker B; other site 311402004230 D-loop; other site 311402004231 H-loop/switch region; other site 311402004232 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402004233 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 311402004234 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004235 Walker A/P-loop; other site 311402004236 ATP binding site [chemical binding]; other site 311402004237 Q-loop/lid; other site 311402004238 ABC transporter signature motif; other site 311402004239 Walker B; other site 311402004240 D-loop; other site 311402004241 H-loop/switch region; other site 311402004242 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402004243 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402004244 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004245 Walker A/P-loop; other site 311402004246 ATP binding site [chemical binding]; other site 311402004247 Q-loop/lid; other site 311402004248 ABC transporter signature motif; other site 311402004249 Walker B; other site 311402004250 D-loop; other site 311402004251 H-loop/switch region; other site 311402004252 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 311402004253 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004254 Walker A/P-loop; other site 311402004255 ATP binding site [chemical binding]; other site 311402004256 Q-loop/lid; other site 311402004257 ABC transporter signature motif; other site 311402004258 Walker B; other site 311402004259 D-loop; other site 311402004260 H-loop/switch region; other site 311402004261 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402004262 MarR family; Region: MarR; pfam01047 311402004263 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402004264 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402004265 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 311402004266 peptide binding site [polypeptide binding]; other site 311402004267 dimer interface [polypeptide binding]; other site 311402004268 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402004269 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004270 dimer interface [polypeptide binding]; other site 311402004271 conserved gate region; other site 311402004272 putative PBP binding loops; other site 311402004273 ABC-ATPase subunit interface; other site 311402004274 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402004275 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402004276 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004277 putative PBP binding loops; other site 311402004278 dimer interface [polypeptide binding]; other site 311402004279 ABC-ATPase subunit interface; other site 311402004280 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 311402004281 non-specific DNA interactions [nucleotide binding]; other site 311402004282 DNA binding site [nucleotide binding] 311402004283 sequence specific DNA binding site [nucleotide binding]; other site 311402004284 putative cAMP binding site [chemical binding]; other site 311402004285 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402004286 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 311402004287 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402004288 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402004289 Walker A/P-loop; other site 311402004290 ATP binding site [chemical binding]; other site 311402004291 Q-loop/lid; other site 311402004292 ABC transporter signature motif; other site 311402004293 Walker B; other site 311402004294 D-loop; other site 311402004295 H-loop/switch region; other site 311402004296 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 311402004297 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 311402004298 ligand binding site [chemical binding]; other site 311402004299 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402004300 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402004301 TM-ABC transporter signature motif; other site 311402004302 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 311402004303 classical (c) SDRs; Region: SDR_c; cd05233 311402004304 NAD(P) binding site [chemical binding]; other site 311402004305 active site 311402004306 MarR family; Region: MarR_2; cl17246 311402004307 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402004308 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 311402004309 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402004310 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402004311 active site 311402004312 D-galactonate transporter; Region: 2A0114; TIGR00893 311402004313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402004314 putative substrate translocation pore; other site 311402004315 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 311402004316 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 311402004317 glutathionine S-transferase; Provisional; Region: PRK10542 311402004318 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 311402004319 C-terminal domain interface [polypeptide binding]; other site 311402004320 GSH binding site (G-site) [chemical binding]; other site 311402004321 dimer interface [polypeptide binding]; other site 311402004322 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 311402004323 dimer interface [polypeptide binding]; other site 311402004324 N-terminal domain interface [polypeptide binding]; other site 311402004325 substrate binding pocket (H-site) [chemical binding]; other site 311402004326 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 311402004327 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 311402004328 active site 311402004329 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 311402004330 active site 311402004331 metal binding site [ion binding]; metal-binding site 311402004332 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 311402004333 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 311402004334 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311402004335 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402004336 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 311402004337 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 311402004338 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 311402004339 active site 311402004340 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402004341 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 311402004342 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 311402004343 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 311402004344 tetramer interface [polypeptide binding]; other site 311402004345 heme binding pocket [chemical binding]; other site 311402004346 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 311402004347 domain interactions; other site 311402004348 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 311402004349 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 311402004350 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402004351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402004352 Walker A/P-loop; other site 311402004353 ATP binding site [chemical binding]; other site 311402004354 Q-loop/lid; other site 311402004355 ABC transporter signature motif; other site 311402004356 Walker B; other site 311402004357 D-loop; other site 311402004358 H-loop/switch region; other site 311402004359 TOBE domain; Region: TOBE_2; pfam08402 311402004360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004361 dimer interface [polypeptide binding]; other site 311402004362 conserved gate region; other site 311402004363 putative PBP binding loops; other site 311402004364 ABC-ATPase subunit interface; other site 311402004365 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402004366 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402004367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004368 dimer interface [polypeptide binding]; other site 311402004369 conserved gate region; other site 311402004370 putative PBP binding loops; other site 311402004371 ABC-ATPase subunit interface; other site 311402004372 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402004373 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402004374 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 311402004375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402004376 NAD(P) binding site [chemical binding]; other site 311402004377 catalytic residues [active] 311402004378 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402004379 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402004380 nucleotide binding site [chemical binding]; other site 311402004381 AAA domain; Region: AAA_33; pfam13671 311402004382 AAA domain; Region: AAA_17; pfam13207 311402004383 Class I aldolases; Region: Aldolase_Class_I; cl17187 311402004384 catalytic residue [active] 311402004385 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402004386 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 311402004387 DNA binding residues [nucleotide binding] 311402004388 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 311402004389 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 311402004390 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402004391 putative ligand binding site [chemical binding]; other site 311402004392 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402004393 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402004394 TM-ABC transporter signature motif; other site 311402004395 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402004396 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402004397 Walker A/P-loop; other site 311402004398 ATP binding site [chemical binding]; other site 311402004399 Q-loop/lid; other site 311402004400 ABC transporter signature motif; other site 311402004401 Walker B; other site 311402004402 D-loop; other site 311402004403 H-loop/switch region; other site 311402004404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402004405 short chain dehydrogenase; Provisional; Region: PRK07060 311402004406 NAD(P) binding site [chemical binding]; other site 311402004407 active site 311402004408 hypothetical protein; Validated; Region: PRK09104 311402004409 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 311402004410 metal binding site [ion binding]; metal-binding site 311402004411 putative dimer interface [polypeptide binding]; other site 311402004412 hypothetical protein; Provisional; Region: PRK05968 311402004413 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 311402004414 homodimer interface [polypeptide binding]; other site 311402004415 substrate-cofactor binding pocket; other site 311402004416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402004417 catalytic residue [active] 311402004418 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402004419 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402004420 DNA-binding site [nucleotide binding]; DNA binding site 311402004421 FCD domain; Region: FCD; pfam07729 311402004422 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402004423 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 311402004424 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402004425 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 311402004426 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402004427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004428 conserved gate region; other site 311402004429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004430 putative PBP binding loops; other site 311402004431 dimer interface [polypeptide binding]; other site 311402004432 ABC-ATPase subunit interface; other site 311402004433 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402004434 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402004435 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004436 dimer interface [polypeptide binding]; other site 311402004437 conserved gate region; other site 311402004438 putative PBP binding loops; other site 311402004439 ABC-ATPase subunit interface; other site 311402004440 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402004441 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004442 Walker A/P-loop; other site 311402004443 ATP binding site [chemical binding]; other site 311402004444 Q-loop/lid; other site 311402004445 ABC transporter signature motif; other site 311402004446 Walker B; other site 311402004447 D-loop; other site 311402004448 H-loop/switch region; other site 311402004449 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402004450 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 311402004451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004452 Walker A/P-loop; other site 311402004453 ATP binding site [chemical binding]; other site 311402004454 Q-loop/lid; other site 311402004455 ABC transporter signature motif; other site 311402004456 Walker B; other site 311402004457 D-loop; other site 311402004458 H-loop/switch region; other site 311402004459 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402004460 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 311402004461 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 311402004462 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 311402004463 active site 311402004464 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402004465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402004466 DNA-binding site [nucleotide binding]; DNA binding site 311402004467 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 311402004468 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_5; cd08511 311402004469 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402004470 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402004471 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004472 dimer interface [polypeptide binding]; other site 311402004473 conserved gate region; other site 311402004474 putative PBP binding loops; other site 311402004475 ABC-ATPase subunit interface; other site 311402004476 dipeptide transporter; Provisional; Region: PRK10913 311402004477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004478 dimer interface [polypeptide binding]; other site 311402004479 conserved gate region; other site 311402004480 putative PBP binding loops; other site 311402004481 ABC-ATPase subunit interface; other site 311402004482 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 311402004483 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 311402004484 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402004485 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004486 Walker A/P-loop; other site 311402004487 ATP binding site [chemical binding]; other site 311402004488 Q-loop/lid; other site 311402004489 ABC transporter signature motif; other site 311402004490 Walker B; other site 311402004491 D-loop; other site 311402004492 H-loop/switch region; other site 311402004493 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402004494 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004495 Walker A/P-loop; other site 311402004496 ATP binding site [chemical binding]; other site 311402004497 Q-loop/lid; other site 311402004498 ABC transporter signature motif; other site 311402004499 Walker B; other site 311402004500 D-loop; other site 311402004501 H-loop/switch region; other site 311402004502 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 311402004503 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 311402004504 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 311402004505 Predicted membrane protein [Function unknown]; Region: COG3766 311402004506 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 311402004507 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 311402004508 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 311402004509 PspA/IM30 family; Region: PspA_IM30; pfam04012 311402004510 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 311402004511 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 311402004512 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 311402004513 malonyl-CoA synthase; Validated; Region: PRK07514 311402004514 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 311402004515 acyl-activating enzyme (AAE) consensus motif; other site 311402004516 active site 311402004517 AMP binding site [chemical binding]; other site 311402004518 CoA binding site [chemical binding]; other site 311402004519 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 311402004520 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402004521 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402004522 DNA-binding site [nucleotide binding]; DNA binding site 311402004523 FCD domain; Region: FCD; pfam07729 311402004524 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311402004525 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402004526 DNA binding residues [nucleotide binding] 311402004527 dimerization interface [polypeptide binding]; other site 311402004528 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402004529 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004530 dimer interface [polypeptide binding]; other site 311402004531 conserved gate region; other site 311402004532 putative PBP binding loops; other site 311402004533 ABC-ATPase subunit interface; other site 311402004534 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402004535 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402004536 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004537 dimer interface [polypeptide binding]; other site 311402004538 conserved gate region; other site 311402004539 putative PBP binding loops; other site 311402004540 ABC-ATPase subunit interface; other site 311402004541 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402004542 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004543 Walker A/P-loop; other site 311402004544 ATP binding site [chemical binding]; other site 311402004545 Q-loop/lid; other site 311402004546 ABC transporter signature motif; other site 311402004547 Walker B; other site 311402004548 D-loop; other site 311402004549 H-loop/switch region; other site 311402004550 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402004551 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402004552 Walker A/P-loop; other site 311402004553 ATP binding site [chemical binding]; other site 311402004554 Q-loop/lid; other site 311402004555 ABC transporter signature motif; other site 311402004556 Walker B; other site 311402004557 D-loop; other site 311402004558 H-loop/switch region; other site 311402004559 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402004560 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 311402004561 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 311402004562 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 311402004563 Protein of unknown function (DUF917); Region: DUF917; pfam06032 311402004564 Protein of unknown function (DUF917); Region: DUF917; pfam06032 311402004565 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402004566 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 311402004567 Response regulator receiver domain; Region: Response_reg; pfam00072 311402004568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402004569 active site 311402004570 phosphorylation site [posttranslational modification] 311402004571 intermolecular recognition site; other site 311402004572 dimerization interface [polypeptide binding]; other site 311402004573 CHASE3 domain; Region: CHASE3; pfam05227 311402004574 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402004575 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 311402004576 putative active site [active] 311402004577 heme pocket [chemical binding]; other site 311402004578 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402004579 dimer interface [polypeptide binding]; other site 311402004580 phosphorylation site [posttranslational modification] 311402004581 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402004582 ATP binding site [chemical binding]; other site 311402004583 Mg2+ binding site [ion binding]; other site 311402004584 G-X-G motif; other site 311402004585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402004586 active site 311402004587 phosphorylation site [posttranslational modification] 311402004588 intermolecular recognition site; other site 311402004589 dimerization interface [polypeptide binding]; other site 311402004590 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311402004591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402004592 active site 311402004593 phosphorylation site [posttranslational modification] 311402004594 intermolecular recognition site; other site 311402004595 dimerization interface [polypeptide binding]; other site 311402004596 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402004597 DNA binding residues [nucleotide binding] 311402004598 dimerization interface [polypeptide binding]; other site 311402004599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 311402004600 Histidine kinase; Region: HisKA_3; pfam07730 311402004601 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402004602 ATP binding site [chemical binding]; other site 311402004603 Mg2+ binding site [ion binding]; other site 311402004604 G-X-G motif; other site 311402004605 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 311402004606 SnoaL-like domain; Region: SnoaL_3; pfam13474 311402004607 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 311402004608 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402004609 putative substrate translocation pore; other site 311402004610 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 311402004611 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 311402004612 Walker A/P-loop; other site 311402004613 ATP binding site [chemical binding]; other site 311402004614 Q-loop/lid; other site 311402004615 ABC transporter signature motif; other site 311402004616 Walker B; other site 311402004617 D-loop; other site 311402004618 H-loop/switch region; other site 311402004619 TOBE-like domain; Region: TOBE_3; pfam12857 311402004620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004621 dimer interface [polypeptide binding]; other site 311402004622 conserved gate region; other site 311402004623 putative PBP binding loops; other site 311402004624 ABC-ATPase subunit interface; other site 311402004625 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 311402004626 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004627 dimer interface [polypeptide binding]; other site 311402004628 conserved gate region; other site 311402004629 putative PBP binding loops; other site 311402004630 ABC-ATPase subunit interface; other site 311402004631 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 311402004632 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 311402004633 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402004634 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402004635 DNA binding site [nucleotide binding] 311402004636 domain linker motif; other site 311402004637 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 311402004638 ligand binding site [chemical binding]; other site 311402004639 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402004640 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402004641 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 311402004642 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 311402004643 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402004644 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402004645 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402004646 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004647 putative PBP binding loops; other site 311402004648 dimer interface [polypeptide binding]; other site 311402004649 ABC-ATPase subunit interface; other site 311402004650 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402004651 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004652 dimer interface [polypeptide binding]; other site 311402004653 conserved gate region; other site 311402004654 putative PBP binding loops; other site 311402004655 ABC-ATPase subunit interface; other site 311402004656 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402004657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402004658 Walker A/P-loop; other site 311402004659 ATP binding site [chemical binding]; other site 311402004660 Q-loop/lid; other site 311402004661 ABC transporter signature motif; other site 311402004662 Walker B; other site 311402004663 D-loop; other site 311402004664 H-loop/switch region; other site 311402004665 TOBE domain; Region: TOBE_2; pfam08402 311402004666 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 311402004667 NMT1/THI5 like; Region: NMT1; pfam09084 311402004668 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402004669 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402004670 Walker A/P-loop; other site 311402004671 ATP binding site [chemical binding]; other site 311402004672 Q-loop/lid; other site 311402004673 ABC transporter signature motif; other site 311402004674 Walker B; other site 311402004675 D-loop; other site 311402004676 H-loop/switch region; other site 311402004677 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402004678 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402004679 dimer interface [polypeptide binding]; other site 311402004680 conserved gate region; other site 311402004681 putative PBP binding loops; other site 311402004682 ABC-ATPase subunit interface; other site 311402004683 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 311402004684 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 311402004685 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 311402004686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402004687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402004688 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402004689 dimerization interface [polypeptide binding]; other site 311402004690 cytosine deaminase-like protein; Validated; Region: PRK07583 311402004691 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 311402004692 active site 311402004693 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 311402004694 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 311402004695 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 311402004696 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 311402004697 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 311402004698 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402004699 putative DNA binding site [nucleotide binding]; other site 311402004700 putative Zn2+ binding site [ion binding]; other site 311402004701 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402004702 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402004703 nucleotide binding site [chemical binding]; other site 311402004704 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG4020; cl07907 311402004705 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 311402004706 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402004707 guanine deaminase; Region: guan_deamin; TIGR02967 311402004708 active site 311402004709 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 311402004710 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 311402004711 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402004712 TM-ABC transporter signature motif; other site 311402004713 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402004714 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402004715 TM-ABC transporter signature motif; other site 311402004716 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 311402004717 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402004718 Walker A/P-loop; other site 311402004719 ATP binding site [chemical binding]; other site 311402004720 Q-loop/lid; other site 311402004721 ABC transporter signature motif; other site 311402004722 Walker B; other site 311402004723 D-loop; other site 311402004724 H-loop/switch region; other site 311402004725 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402004726 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 311402004727 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 311402004728 putative ligand binding site [chemical binding]; other site 311402004729 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 311402004730 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 311402004731 [2Fe-2S] cluster binding site [ion binding]; other site 311402004732 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402004733 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 311402004734 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 311402004735 N-terminal domain interface [polypeptide binding]; other site 311402004736 dimer interface [polypeptide binding]; other site 311402004737 substrate binding pocket (H-site) [chemical binding]; other site 311402004738 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 311402004739 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402004740 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402004741 active site 311402004742 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 311402004743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402004744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402004745 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402004746 dimerization interface [polypeptide binding]; other site 311402004747 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 311402004748 PYR/PP interface [polypeptide binding]; other site 311402004749 dimer interface [polypeptide binding]; other site 311402004750 TPP binding site [chemical binding]; other site 311402004751 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 311402004752 TPP-binding site [chemical binding]; other site 311402004753 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 311402004754 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 311402004755 active site 311402004756 putative substrate binding pocket [chemical binding]; other site 311402004757 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 311402004758 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 311402004759 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 311402004760 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 311402004761 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 311402004762 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 311402004763 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 311402004764 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402004765 catalytic loop [active] 311402004766 iron binding site [ion binding]; other site 311402004767 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 311402004768 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 311402004769 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402004770 NAD(P) binding site [chemical binding]; other site 311402004771 catalytic residues [active] 311402004772 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 311402004773 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 311402004774 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 311402004775 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402004776 DNA-binding site [nucleotide binding]; DNA binding site 311402004777 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 311402004778 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 311402004779 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 311402004780 active site 311402004781 substrate binding site [chemical binding]; other site 311402004782 FMN binding site [chemical binding]; other site 311402004783 putative catalytic residues [active] 311402004784 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 311402004785 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402004786 active site 311402004787 metal binding site [ion binding]; metal-binding site 311402004788 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 311402004789 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402004790 active site 311402004791 metal binding site [ion binding]; metal-binding site 311402004792 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311402004793 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402004794 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 311402004795 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402004796 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 311402004797 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 311402004798 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402004799 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 311402004800 TM-ABC transporter signature motif; other site 311402004801 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 311402004802 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 311402004803 TM-ABC transporter signature motif; other site 311402004804 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402004805 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 311402004806 Walker A/P-loop; other site 311402004807 ATP binding site [chemical binding]; other site 311402004808 Q-loop/lid; other site 311402004809 ABC transporter signature motif; other site 311402004810 Walker B; other site 311402004811 D-loop; other site 311402004812 H-loop/switch region; other site 311402004813 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 311402004814 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 311402004815 Walker A/P-loop; other site 311402004816 ATP binding site [chemical binding]; other site 311402004817 Q-loop/lid; other site 311402004818 ABC transporter signature motif; other site 311402004819 Walker B; other site 311402004820 D-loop; other site 311402004821 H-loop/switch region; other site 311402004822 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 311402004823 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 311402004824 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 311402004825 dimer interface [polypeptide binding]; other site 311402004826 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 311402004827 active site 311402004828 Fe binding site [ion binding]; other site 311402004829 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402004830 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402004831 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 311402004832 Dehydroquinase class II; Region: DHquinase_II; pfam01220 311402004833 trimer interface [polypeptide binding]; other site 311402004834 active site 311402004835 dimer interface [polypeptide binding]; other site 311402004836 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 311402004837 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 311402004838 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 311402004839 shikimate binding site; other site 311402004840 NAD(P) binding site [chemical binding]; other site 311402004841 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402004842 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311402004843 Walker A/P-loop; other site 311402004844 ATP binding site [chemical binding]; other site 311402004845 Q-loop/lid; other site 311402004846 ABC transporter signature motif; other site 311402004847 Walker B; other site 311402004848 D-loop; other site 311402004849 H-loop/switch region; other site 311402004850 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402004851 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402004852 substrate binding pocket [chemical binding]; other site 311402004853 membrane-bound complex binding site; other site 311402004854 hinge residues; other site 311402004855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004856 dimer interface [polypeptide binding]; other site 311402004857 conserved gate region; other site 311402004858 putative PBP binding loops; other site 311402004859 ABC-ATPase subunit interface; other site 311402004860 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402004861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004862 dimer interface [polypeptide binding]; other site 311402004863 conserved gate region; other site 311402004864 putative PBP binding loops; other site 311402004865 ABC-ATPase subunit interface; other site 311402004866 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 311402004867 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 311402004868 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 311402004869 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 311402004870 catalytic site [active] 311402004871 active site 311402004872 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 311402004873 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 311402004874 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 311402004875 active site 311402004876 catalytic site [active] 311402004877 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 311402004878 Short C-terminal domain; Region: SHOCT; pfam09851 311402004879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 311402004880 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 311402004881 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402004882 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402004883 Walker A/P-loop; other site 311402004884 ATP binding site [chemical binding]; other site 311402004885 Q-loop/lid; other site 311402004886 ABC transporter signature motif; other site 311402004887 Walker B; other site 311402004888 D-loop; other site 311402004889 H-loop/switch region; other site 311402004890 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402004891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004892 dimer interface [polypeptide binding]; other site 311402004893 conserved gate region; other site 311402004894 putative PBP binding loops; other site 311402004895 ABC-ATPase subunit interface; other site 311402004896 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 311402004897 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402004898 substrate binding pocket [chemical binding]; other site 311402004899 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 311402004900 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 311402004901 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402004902 membrane-bound complex binding site; other site 311402004903 hinge residues; other site 311402004904 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 311402004905 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 311402004906 active site 311402004907 dimer interface [polypeptide binding]; other site 311402004908 non-prolyl cis peptide bond; other site 311402004909 insertion regions; other site 311402004910 Predicted transcriptional regulator [Transcription]; Region: COG1959 311402004911 Transcriptional regulator; Region: Rrf2; pfam02082 311402004912 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 311402004913 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402004914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402004915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402004916 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 311402004917 putative effector binding pocket; other site 311402004918 putative dimerization interface [polypeptide binding]; other site 311402004919 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 311402004920 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402004921 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402004922 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 311402004923 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402004924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402004925 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 311402004926 putative substrate binding pocket [chemical binding]; other site 311402004927 putative dimerization interface [polypeptide binding]; other site 311402004928 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 311402004929 EthD domain; Region: EthD; pfam07110 311402004930 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 311402004931 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402004932 putative active site [active] 311402004933 putative metal binding site [ion binding]; other site 311402004934 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 311402004935 iron-sulfur cluster [ion binding]; other site 311402004936 [2Fe-2S] cluster binding site [ion binding]; other site 311402004937 hypothetical protein; Provisional; Region: PRK06847 311402004938 hypothetical protein; Provisional; Region: PRK07236 311402004939 Cupin domain; Region: Cupin_2; pfam07883 311402004940 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311402004941 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402004942 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402004943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402004944 NAD(P) binding site [chemical binding]; other site 311402004945 active site 311402004946 Putative cyclase; Region: Cyclase; pfam04199 311402004947 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402004948 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402004949 Walker A/P-loop; other site 311402004950 ATP binding site [chemical binding]; other site 311402004951 Q-loop/lid; other site 311402004952 ABC transporter signature motif; other site 311402004953 Walker B; other site 311402004954 D-loop; other site 311402004955 H-loop/switch region; other site 311402004956 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 311402004957 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 311402004958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004959 dimer interface [polypeptide binding]; other site 311402004960 conserved gate region; other site 311402004961 putative PBP binding loops; other site 311402004962 ABC-ATPase subunit interface; other site 311402004963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402004964 dimer interface [polypeptide binding]; other site 311402004965 conserved gate region; other site 311402004966 putative PBP binding loops; other site 311402004967 ABC-ATPase subunit interface; other site 311402004968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402004969 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402004970 dimer interface [polypeptide binding]; other site 311402004971 phosphorylation site [posttranslational modification] 311402004972 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402004973 ATP binding site [chemical binding]; other site 311402004974 Mg2+ binding site [ion binding]; other site 311402004975 G-X-G motif; other site 311402004976 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 311402004977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402004978 active site 311402004979 phosphorylation site [posttranslational modification] 311402004980 intermolecular recognition site; other site 311402004981 dimerization interface [polypeptide binding]; other site 311402004982 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402004983 DNA binding residues [nucleotide binding] 311402004984 dimerization interface [polypeptide binding]; other site 311402004985 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 311402004986 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 311402004987 AP (apurinic/apyrimidinic) site pocket; other site 311402004988 DNA interaction; other site 311402004989 Metal-binding active site; metal-binding site 311402004990 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402004991 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402004992 Walker A/P-loop; other site 311402004993 ATP binding site [chemical binding]; other site 311402004994 Q-loop/lid; other site 311402004995 ABC transporter signature motif; other site 311402004996 Walker B; other site 311402004997 D-loop; other site 311402004998 H-loop/switch region; other site 311402004999 TOBE domain; Region: TOBE_2; pfam08402 311402005000 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402005001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005002 dimer interface [polypeptide binding]; other site 311402005003 conserved gate region; other site 311402005004 putative PBP binding loops; other site 311402005005 ABC-ATPase subunit interface; other site 311402005006 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 311402005007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005008 putative PBP binding loops; other site 311402005009 dimer interface [polypeptide binding]; other site 311402005010 ABC-ATPase subunit interface; other site 311402005011 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402005012 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402005013 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402005014 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005015 dimer interface [polypeptide binding]; other site 311402005016 conserved gate region; other site 311402005017 putative PBP binding loops; other site 311402005018 ABC-ATPase subunit interface; other site 311402005019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005020 dimer interface [polypeptide binding]; other site 311402005021 conserved gate region; other site 311402005022 putative PBP binding loops; other site 311402005023 ABC-ATPase subunit interface; other site 311402005024 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402005025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402005026 Walker A/P-loop; other site 311402005027 ATP binding site [chemical binding]; other site 311402005028 Q-loop/lid; other site 311402005029 ABC transporter signature motif; other site 311402005030 Walker B; other site 311402005031 D-loop; other site 311402005032 H-loop/switch region; other site 311402005033 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 311402005034 hypothetical protein; Provisional; Region: PRK11622 311402005035 Protein of unknown function, DUF608; Region: DUF608; pfam04685 311402005036 Trehalase; Region: Trehalase; cl17346 311402005037 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402005038 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402005039 nucleotide binding site [chemical binding]; other site 311402005040 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG4020; cl07907 311402005041 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 311402005042 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402005043 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 311402005044 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402005045 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005046 dimer interface [polypeptide binding]; other site 311402005047 conserved gate region; other site 311402005048 putative PBP binding loops; other site 311402005049 ABC-ATPase subunit interface; other site 311402005050 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 311402005051 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402005052 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005053 dimer interface [polypeptide binding]; other site 311402005054 conserved gate region; other site 311402005055 putative PBP binding loops; other site 311402005056 ABC-ATPase subunit interface; other site 311402005057 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402005058 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005059 Walker A/P-loop; other site 311402005060 ATP binding site [chemical binding]; other site 311402005061 Q-loop/lid; other site 311402005062 ABC transporter signature motif; other site 311402005063 Walker B; other site 311402005064 D-loop; other site 311402005065 H-loop/switch region; other site 311402005066 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402005067 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 311402005068 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005069 Walker A/P-loop; other site 311402005070 ATP binding site [chemical binding]; other site 311402005071 Q-loop/lid; other site 311402005072 ABC transporter signature motif; other site 311402005073 Walker B; other site 311402005074 D-loop; other site 311402005075 H-loop/switch region; other site 311402005076 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402005077 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402005078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402005079 active site 311402005080 phosphorylation site [posttranslational modification] 311402005081 intermolecular recognition site; other site 311402005082 dimerization interface [polypeptide binding]; other site 311402005083 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402005084 DNA binding site [nucleotide binding] 311402005085 sensor protein QseC; Provisional; Region: PRK10337 311402005086 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402005087 dimer interface [polypeptide binding]; other site 311402005088 phosphorylation site [posttranslational modification] 311402005089 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402005090 Mg2+ binding site [ion binding]; other site 311402005091 G-X-G motif; other site 311402005092 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 311402005093 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 311402005094 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 311402005095 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402005096 inhibitor-cofactor binding pocket; inhibition site 311402005097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402005098 catalytic residue [active] 311402005099 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 311402005100 active site 311402005101 metal binding site [ion binding]; metal-binding site 311402005102 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 311402005103 Fatty acid desaturase; Region: FA_desaturase; pfam00487 311402005104 putative di-iron ligands [ion binding]; other site 311402005105 Esterase/lipase [General function prediction only]; Region: COG1647 311402005106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 311402005107 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 311402005108 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 311402005109 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 311402005110 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 311402005111 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 311402005112 DXD motif; other site 311402005113 PilZ domain; Region: PilZ; pfam07238 311402005114 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 311402005115 GAF domain; Region: GAF; pfam01590 311402005116 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402005117 PAS fold; Region: PAS_3; pfam08447 311402005118 putative active site [active] 311402005119 heme pocket [chemical binding]; other site 311402005120 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 311402005121 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 311402005122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402005123 HWE histidine kinase; Region: HWE_HK; smart00911 311402005124 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402005125 PAS domain; Region: PAS_9; pfam13426 311402005126 putative active site [active] 311402005127 heme pocket [chemical binding]; other site 311402005128 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402005129 Histidine kinase; Region: HisKA_2; pfam07568 311402005130 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 311402005131 Mg2+ binding site [ion binding]; other site 311402005132 response regulator; Provisional; Region: PRK13435 311402005133 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402005134 active site 311402005135 phosphorylation site [posttranslational modification] 311402005136 intermolecular recognition site; other site 311402005137 dimerization interface [polypeptide binding]; other site 311402005138 Predicted GTPases [General function prediction only]; Region: COG1162 311402005139 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 311402005140 GTPase/Zn-binding domain interface [polypeptide binding]; other site 311402005141 GTP/Mg2+ binding site [chemical binding]; other site 311402005142 G4 box; other site 311402005143 G5 box; other site 311402005144 G1 box; other site 311402005145 Switch I region; other site 311402005146 G2 box; other site 311402005147 G3 box; other site 311402005148 Switch II region; other site 311402005149 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402005150 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311402005151 putative active site [active] 311402005152 heme pocket [chemical binding]; other site 311402005153 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402005154 putative active site [active] 311402005155 heme pocket [chemical binding]; other site 311402005156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402005157 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402005158 dimer interface [polypeptide binding]; other site 311402005159 phosphorylation site [posttranslational modification] 311402005160 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402005161 ATP binding site [chemical binding]; other site 311402005162 Mg2+ binding site [ion binding]; other site 311402005163 G-X-G motif; other site 311402005164 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402005165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402005166 active site 311402005167 phosphorylation site [posttranslational modification] 311402005168 intermolecular recognition site; other site 311402005169 dimerization interface [polypeptide binding]; other site 311402005170 Response regulator receiver domain; Region: Response_reg; pfam00072 311402005171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402005172 active site 311402005173 phosphorylation site [posttranslational modification] 311402005174 intermolecular recognition site; other site 311402005175 dimerization interface [polypeptide binding]; other site 311402005176 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402005177 extended (e) SDRs; Region: SDR_e; cd08946 311402005178 NAD(P) binding site [chemical binding]; other site 311402005179 active site 311402005180 substrate binding site [chemical binding]; other site 311402005181 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402005182 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402005183 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402005184 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402005185 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 311402005186 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402005187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005188 dimer interface [polypeptide binding]; other site 311402005189 conserved gate region; other site 311402005190 putative PBP binding loops; other site 311402005191 ABC-ATPase subunit interface; other site 311402005192 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402005193 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311402005194 Walker A/P-loop; other site 311402005195 ATP binding site [chemical binding]; other site 311402005196 Q-loop/lid; other site 311402005197 ABC transporter signature motif; other site 311402005198 Walker B; other site 311402005199 D-loop; other site 311402005200 H-loop/switch region; other site 311402005201 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402005202 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402005203 substrate binding pocket [chemical binding]; other site 311402005204 membrane-bound complex binding site; other site 311402005205 hinge residues; other site 311402005206 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402005207 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402005208 DNA binding site [nucleotide binding] 311402005209 domain linker motif; other site 311402005210 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 311402005211 dimerization interface [polypeptide binding]; other site 311402005212 ligand binding site [chemical binding]; other site 311402005213 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402005214 dimerization interface [polypeptide binding]; other site 311402005215 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 311402005216 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402005217 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402005218 dimer interface [polypeptide binding]; other site 311402005219 putative CheW interface [polypeptide binding]; other site 311402005220 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 311402005221 putative CheA interaction surface; other site 311402005222 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402005223 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402005224 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402005225 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 311402005226 Protein export membrane protein; Region: SecD_SecF; cl14618 311402005227 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 311402005228 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402005229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402005230 DNA-binding site [nucleotide binding]; DNA binding site 311402005231 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 311402005232 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 311402005233 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 311402005234 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 311402005235 metal-binding site [ion binding] 311402005236 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 311402005237 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 311402005238 DNA binding residues [nucleotide binding] 311402005239 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 311402005240 dimer interface [polypeptide binding]; other site 311402005241 putative metal binding site [ion binding]; other site 311402005242 glycogen branching enzyme; Provisional; Region: PRK05402 311402005243 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 311402005244 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 311402005245 active site 311402005246 catalytic site [active] 311402005247 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 311402005248 trehalose synthase; Region: treS_nterm; TIGR02456 311402005249 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 311402005250 active site 311402005251 catalytic site [active] 311402005252 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 311402005253 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 311402005254 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 311402005255 active site 311402005256 catalytic site [active] 311402005257 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 311402005258 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 311402005259 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 311402005260 active site 311402005261 homodimer interface [polypeptide binding]; other site 311402005262 catalytic site [active] 311402005263 acceptor binding site [chemical binding]; other site 311402005264 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 311402005265 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 311402005266 DNA-binding site [nucleotide binding]; DNA binding site 311402005267 RNA-binding motif; other site 311402005268 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 311402005269 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 311402005270 FMN binding site [chemical binding]; other site 311402005271 active site 311402005272 catalytic residues [active] 311402005273 substrate binding site [chemical binding]; other site 311402005274 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402005275 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402005276 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 311402005277 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 311402005278 conserved cys residue [active] 311402005279 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402005280 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402005281 DNA-binding site [nucleotide binding]; DNA binding site 311402005282 FCD domain; Region: FCD; pfam07729 311402005283 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 311402005284 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 311402005285 inhibitor site; inhibition site 311402005286 active site 311402005287 dimer interface [polypeptide binding]; other site 311402005288 catalytic residue [active] 311402005289 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 311402005290 active site 311402005291 catalytic site [active] 311402005292 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 311402005293 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 311402005294 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402005295 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402005296 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 311402005297 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402005298 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402005299 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402005300 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005301 ABC-ATPase subunit interface; other site 311402005302 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402005303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005304 dimer interface [polypeptide binding]; other site 311402005305 conserved gate region; other site 311402005306 putative PBP binding loops; other site 311402005307 ABC-ATPase subunit interface; other site 311402005308 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402005309 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402005310 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402005311 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402005312 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 311402005313 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 311402005314 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402005315 Walker A/P-loop; other site 311402005316 ATP binding site [chemical binding]; other site 311402005317 Q-loop/lid; other site 311402005318 ABC transporter signature motif; other site 311402005319 Walker B; other site 311402005320 D-loop; other site 311402005321 H-loop/switch region; other site 311402005322 TOBE domain; Region: TOBE_2; pfam08402 311402005323 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 311402005324 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 311402005325 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 311402005326 short chain dehydrogenase; Provisional; Region: PRK06701 311402005327 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 311402005328 NAD binding site [chemical binding]; other site 311402005329 metal binding site [ion binding]; metal-binding site 311402005330 active site 311402005331 Cache domain; Region: Cache_1; pfam02743 311402005332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402005333 HWE histidine kinase; Region: HWE_HK; pfam07536 311402005334 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 311402005335 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311402005336 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311402005337 Walker A motif; other site 311402005338 Walker A motif; other site 311402005339 ATP binding site [chemical binding]; other site 311402005340 Walker B motif; other site 311402005341 KaiC; Region: KaiC; pfam06745 311402005342 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 311402005343 Walker A motif; other site 311402005344 ATP binding site [chemical binding]; other site 311402005345 Walker B motif; other site 311402005346 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402005347 HWE histidine kinase; Region: HWE_HK; pfam07536 311402005348 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402005349 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 311402005350 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 311402005351 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 311402005352 putative NAD(P) binding site [chemical binding]; other site 311402005353 catalytic Zn binding site [ion binding]; other site 311402005354 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 311402005355 dimerization interface [polypeptide binding]; other site 311402005356 metal binding site [ion binding]; metal-binding site 311402005357 RNA polymerase sigma factor; Provisional; Region: PRK12547 311402005358 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402005359 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402005360 DNA binding residues [nucleotide binding] 311402005361 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 311402005362 Transcriptional regulator [Transcription]; Region: IclR; COG1414 311402005363 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402005364 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402005365 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402005366 putative substrate translocation pore; other site 311402005367 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 311402005368 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 311402005369 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402005370 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402005371 metal binding site [ion binding]; metal-binding site 311402005372 active site 311402005373 I-site; other site 311402005374 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402005375 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 311402005376 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 311402005377 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402005378 catalytic loop [active] 311402005379 iron binding site [ion binding]; other site 311402005380 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 311402005381 cyclase homology domain; Region: CHD; cd07302 311402005382 nucleotidyl binding site; other site 311402005383 metal binding site [ion binding]; metal-binding site 311402005384 dimer interface [polypeptide binding]; other site 311402005385 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 311402005386 cyclase homology domain; Region: CHD; cd07302 311402005387 nucleotidyl binding site; other site 311402005388 metal binding site [ion binding]; metal-binding site 311402005389 dimer interface [polypeptide binding]; other site 311402005390 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402005391 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402005392 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 311402005393 Walker A/P-loop; other site 311402005394 ATP binding site [chemical binding]; other site 311402005395 Q-loop/lid; other site 311402005396 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402005397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402005398 Q-loop/lid; other site 311402005399 ABC transporter signature motif; other site 311402005400 Walker B; other site 311402005401 D-loop; other site 311402005402 H-loop/switch region; other site 311402005403 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402005404 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 311402005405 ligand binding site [chemical binding]; other site 311402005406 flexible hinge region; other site 311402005407 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 311402005408 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 311402005409 active site 311402005410 dimerization interface [polypeptide binding]; other site 311402005411 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 311402005412 active site 311402005413 catalytic site [active] 311402005414 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 311402005415 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402005416 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402005417 Walker A/P-loop; other site 311402005418 ATP binding site [chemical binding]; other site 311402005419 Q-loop/lid; other site 311402005420 ABC transporter signature motif; other site 311402005421 Walker B; other site 311402005422 D-loop; other site 311402005423 H-loop/switch region; other site 311402005424 TOBE domain; Region: TOBE_2; pfam08402 311402005425 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402005426 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005427 dimer interface [polypeptide binding]; other site 311402005428 conserved gate region; other site 311402005429 putative PBP binding loops; other site 311402005430 ABC-ATPase subunit interface; other site 311402005431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005432 dimer interface [polypeptide binding]; other site 311402005433 conserved gate region; other site 311402005434 putative PBP binding loops; other site 311402005435 ABC-ATPase subunit interface; other site 311402005436 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402005437 hypothetical protein; Provisional; Region: PRK11622 311402005438 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 311402005439 metal-binding site 311402005440 D-mannonate dehydratase [Carbohydrate transport and metabolism]; Region: UxuA; COG1312 311402005441 mannonate dehydratase; Region: uxuA; TIGR00695 311402005442 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 311402005443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402005444 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 311402005445 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 311402005446 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402005447 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 311402005448 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 311402005449 active site 311402005450 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 311402005451 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 311402005452 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402005453 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402005454 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402005455 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402005456 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 311402005457 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 311402005458 putative NADP binding site [chemical binding]; other site 311402005459 active site 311402005460 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 311402005461 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 311402005462 active site 311402005463 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 311402005464 active site 311402005465 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 311402005466 active site 311402005467 Acyl transferase domain; Region: Acyl_transf_1; cl08282 311402005468 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 311402005469 active site 2 [active] 311402005470 active site 1 [active] 311402005471 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 311402005472 active site 1 [active] 311402005473 dimer interface [polypeptide binding]; other site 311402005474 active site 2 [active] 311402005475 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 311402005476 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 311402005477 FMN binding site [chemical binding]; other site 311402005478 substrate binding site [chemical binding]; other site 311402005479 putative catalytic residue [active] 311402005480 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402005481 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402005482 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402005483 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 311402005484 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 311402005485 active site 311402005486 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 311402005487 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 311402005488 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005489 Walker A/P-loop; other site 311402005490 ATP binding site [chemical binding]; other site 311402005491 Q-loop/lid; other site 311402005492 ABC transporter signature motif; other site 311402005493 Walker B; other site 311402005494 D-loop; other site 311402005495 H-loop/switch region; other site 311402005496 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 311402005497 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402005498 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005499 Walker A/P-loop; other site 311402005500 ATP binding site [chemical binding]; other site 311402005501 Q-loop/lid; other site 311402005502 ABC transporter signature motif; other site 311402005503 Walker B; other site 311402005504 D-loop; other site 311402005505 H-loop/switch region; other site 311402005506 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402005507 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402005508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005509 dimer interface [polypeptide binding]; other site 311402005510 conserved gate region; other site 311402005511 putative PBP binding loops; other site 311402005512 ABC-ATPase subunit interface; other site 311402005513 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402005514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005515 dimer interface [polypeptide binding]; other site 311402005516 conserved gate region; other site 311402005517 putative PBP binding loops; other site 311402005518 ABC-ATPase subunit interface; other site 311402005519 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402005520 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold; Region: PBP2_clavulanate_OppA2; cd08506 311402005521 peptide binding site [polypeptide binding]; other site 311402005522 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 311402005523 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 311402005524 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 311402005525 ANTAR domain; Region: ANTAR; pfam03861 311402005526 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 311402005527 Periplasmic binding protein domain; Region: Peripla_BP_5; pfam13433 311402005528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402005529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402005530 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402005531 dimerization interface [polypeptide binding]; other site 311402005532 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402005533 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 311402005534 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402005535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005536 dimer interface [polypeptide binding]; other site 311402005537 conserved gate region; other site 311402005538 putative PBP binding loops; other site 311402005539 ABC-ATPase subunit interface; other site 311402005540 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402005541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005542 dimer interface [polypeptide binding]; other site 311402005543 conserved gate region; other site 311402005544 putative PBP binding loops; other site 311402005545 ABC-ATPase subunit interface; other site 311402005546 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402005547 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005548 Walker A/P-loop; other site 311402005549 ATP binding site [chemical binding]; other site 311402005550 Q-loop/lid; other site 311402005551 ABC transporter signature motif; other site 311402005552 Walker B; other site 311402005553 D-loop; other site 311402005554 H-loop/switch region; other site 311402005555 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402005556 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 311402005557 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005558 Walker A/P-loop; other site 311402005559 ATP binding site [chemical binding]; other site 311402005560 Q-loop/lid; other site 311402005561 ABC transporter signature motif; other site 311402005562 Walker B; other site 311402005563 D-loop; other site 311402005564 H-loop/switch region; other site 311402005565 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402005566 amidase; Provisional; Region: PRK07042 311402005567 Amidase; Region: Amidase; cl11426 311402005568 allophanate hydrolase; Provisional; Region: PRK08186 311402005569 Amidase; Region: Amidase; pfam01425 311402005570 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 311402005571 Isochorismatase family; Region: Isochorismatase; pfam00857 311402005572 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 311402005573 catalytic triad [active] 311402005574 conserved cis-peptide bond; other site 311402005575 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 311402005576 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402005577 Walker A/P-loop; other site 311402005578 ATP binding site [chemical binding]; other site 311402005579 Q-loop/lid; other site 311402005580 ABC transporter signature motif; other site 311402005581 Walker B; other site 311402005582 D-loop; other site 311402005583 H-loop/switch region; other site 311402005584 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402005585 Amidohydrolase ring-opening protein (Amido_AtzD_TrzD); Region: Amido_AtzD_TrzD; pfam09663 311402005586 Isochorismatase family; Region: Isochorismatase; pfam00857 311402005587 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 311402005588 catalytic triad [active] 311402005589 conserved cis-peptide bond; other site 311402005590 formamidase; Provisional; Region: amiF; PRK13287 311402005591 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 311402005592 multimer interface [polypeptide binding]; other site 311402005593 active site 311402005594 catalytic triad [active] 311402005595 dimer interface [polypeptide binding]; other site 311402005596 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402005597 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402005598 TM-ABC transporter signature motif; other site 311402005599 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402005600 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402005601 TM-ABC transporter signature motif; other site 311402005602 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 311402005603 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 311402005604 putative ligand binding site [chemical binding]; other site 311402005605 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402005606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402005607 DNA-binding site [nucleotide binding]; DNA binding site 311402005608 FCD domain; Region: FCD; pfam07729 311402005609 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402005610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005611 Walker A/P-loop; other site 311402005612 ATP binding site [chemical binding]; other site 311402005613 Q-loop/lid; other site 311402005614 ABC transporter signature motif; other site 311402005615 Walker B; other site 311402005616 D-loop; other site 311402005617 H-loop/switch region; other site 311402005618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402005619 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005620 Walker A/P-loop; other site 311402005621 ATP binding site [chemical binding]; other site 311402005622 Q-loop/lid; other site 311402005623 ABC transporter signature motif; other site 311402005624 Walker B; other site 311402005625 D-loop; other site 311402005626 H-loop/switch region; other site 311402005627 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402005628 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402005629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005630 dimer interface [polypeptide binding]; other site 311402005631 conserved gate region; other site 311402005632 ABC-ATPase subunit interface; other site 311402005633 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402005634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005635 dimer interface [polypeptide binding]; other site 311402005636 conserved gate region; other site 311402005637 putative PBP binding loops; other site 311402005638 ABC-ATPase subunit interface; other site 311402005639 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402005640 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 311402005641 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 311402005642 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 311402005643 hypothetical protein; Provisional; Region: PRK05965 311402005644 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402005645 inhibitor-cofactor binding pocket; inhibition site 311402005646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402005647 catalytic residue [active] 311402005648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402005649 Coenzyme A binding pocket [chemical binding]; other site 311402005650 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 311402005651 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 311402005652 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 311402005653 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402005654 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 311402005655 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402005656 NAD(P) binding site [chemical binding]; other site 311402005657 catalytic residues [active] 311402005658 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 311402005659 acetylornithine deacetylase; Provisional; Region: PRK07522 311402005660 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 311402005661 metal binding site [ion binding]; metal-binding site 311402005662 putative dimer interface [polypeptide binding]; other site 311402005663 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402005664 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 311402005665 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 311402005666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402005667 E3 interaction surface; other site 311402005668 lipoyl attachment site [posttranslational modification]; other site 311402005669 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402005670 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 311402005671 Protein export membrane protein; Region: SecD_SecF; cl14618 311402005672 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 311402005673 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 311402005674 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 311402005675 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 311402005676 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402005677 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 311402005678 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 311402005679 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402005680 carboxyltransferase (CT) interaction site; other site 311402005681 biotinylation site [posttranslational modification]; other site 311402005682 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 311402005683 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 311402005684 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 311402005685 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 311402005686 active site 311402005687 substrate binding site [chemical binding]; other site 311402005688 coenzyme B12 binding site [chemical binding]; other site 311402005689 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 311402005690 B12 binding site [chemical binding]; other site 311402005691 cobalt ligand [ion binding]; other site 311402005692 transcriptional regulator SlyA; Provisional; Region: PRK03573 311402005693 MarR family; Region: MarR; pfam01047 311402005694 Fusaric acid resistance protein family; Region: FUSC; pfam04632 311402005695 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 311402005696 Resolvase, N terminal domain; Region: Resolvase; smart00857 311402005697 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 311402005698 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402005699 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402005700 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311402005701 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402005702 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 311402005703 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 311402005704 NAD binding site [chemical binding]; other site 311402005705 homotetramer interface [polypeptide binding]; other site 311402005706 homodimer interface [polypeptide binding]; other site 311402005707 active site 311402005708 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 311402005709 NADH(P)-binding; Region: NAD_binding_10; pfam13460 311402005710 extended (e) SDRs; Region: SDR_e; cd08946 311402005711 NAD(P) binding site [chemical binding]; other site 311402005712 active site 311402005713 substrate binding site [chemical binding]; other site 311402005714 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 311402005715 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402005716 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005717 Walker A/P-loop; other site 311402005718 ATP binding site [chemical binding]; other site 311402005719 Q-loop/lid; other site 311402005720 ABC transporter signature motif; other site 311402005721 Walker B; other site 311402005722 D-loop; other site 311402005723 H-loop/switch region; other site 311402005724 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402005725 Walker A/P-loop; other site 311402005726 ATP binding site [chemical binding]; other site 311402005727 Q-loop/lid; other site 311402005728 ABC transporter signature motif; other site 311402005729 Walker B; other site 311402005730 D-loop; other site 311402005731 H-loop/switch region; other site 311402005732 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402005733 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 311402005734 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402005735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005736 dimer interface [polypeptide binding]; other site 311402005737 conserved gate region; other site 311402005738 putative PBP binding loops; other site 311402005739 ABC-ATPase subunit interface; other site 311402005740 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402005741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005742 dimer interface [polypeptide binding]; other site 311402005743 conserved gate region; other site 311402005744 putative PBP binding loops; other site 311402005745 ABC-ATPase subunit interface; other site 311402005746 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 311402005747 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402005748 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 311402005749 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 311402005750 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 311402005751 putative active site [active] 311402005752 catalytic residue [active] 311402005753 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402005754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402005755 DNA-binding site [nucleotide binding]; DNA binding site 311402005756 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 311402005757 hypothetical protein; Provisional; Region: PRK07079 311402005758 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 311402005759 metal binding site [ion binding]; metal-binding site 311402005760 putative dimer interface [polypeptide binding]; other site 311402005761 Predicted transcriptional regulator [Transcription]; Region: COG4189 311402005762 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402005763 dimerization interface [polypeptide binding]; other site 311402005764 putative DNA binding site [nucleotide binding]; other site 311402005765 putative Zn2+ binding site [ion binding]; other site 311402005766 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 311402005767 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 311402005768 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402005769 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402005770 Walker A/P-loop; other site 311402005771 ATP binding site [chemical binding]; other site 311402005772 Q-loop/lid; other site 311402005773 ABC transporter signature motif; other site 311402005774 Walker B; other site 311402005775 D-loop; other site 311402005776 H-loop/switch region; other site 311402005777 TOBE domain; Region: TOBE_2; pfam08402 311402005778 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 311402005779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005780 conserved gate region; other site 311402005781 ABC-ATPase subunit interface; other site 311402005782 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402005783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005784 dimer interface [polypeptide binding]; other site 311402005785 conserved gate region; other site 311402005786 putative PBP binding loops; other site 311402005787 ABC-ATPase subunit interface; other site 311402005788 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402005789 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402005790 riboflavin synthase subunit beta; Provisional; Region: PRK12419 311402005791 active site 311402005792 homopentamer interface [polypeptide binding]; other site 311402005793 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402005794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402005795 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 311402005796 dimerization interface [polypeptide binding]; other site 311402005797 substrate binding pocket [chemical binding]; other site 311402005798 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 311402005799 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402005800 aldehyde dehydrogenase family 7 member; Region: PLN02315 311402005801 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 311402005802 tetrameric interface [polypeptide binding]; other site 311402005803 NAD binding site [chemical binding]; other site 311402005804 catalytic residues [active] 311402005805 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 311402005806 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 311402005807 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 311402005808 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 311402005809 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 311402005810 homodimer interface [polypeptide binding]; other site 311402005811 active site 311402005812 TDP-binding site; other site 311402005813 acceptor substrate-binding pocket; other site 311402005814 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 311402005815 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402005816 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402005817 DNA binding residues [nucleotide binding] 311402005818 dimerization interface [polypeptide binding]; other site 311402005819 diaminopimelate decarboxylase; Provisional; Region: PRK11165 311402005820 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 311402005821 active site 311402005822 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402005823 substrate binding site [chemical binding]; other site 311402005824 catalytic residues [active] 311402005825 dimer interface [polypeptide binding]; other site 311402005826 hypothetical protein; Provisional; Region: PRK05968 311402005827 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 311402005828 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402005829 catalytic residue [active] 311402005830 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 311402005831 putative efflux protein, MATE family; Region: matE; TIGR00797 311402005832 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 311402005833 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 311402005834 Condensation domain; Region: Condensation; pfam00668 311402005835 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 311402005836 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 311402005837 acyl-activating enzyme (AAE) consensus motif; other site 311402005838 AMP binding site [chemical binding]; other site 311402005839 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402005840 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 311402005841 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 311402005842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 311402005843 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 311402005844 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402005845 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402005846 Coenzyme A binding pocket [chemical binding]; other site 311402005847 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 311402005848 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 311402005849 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 311402005850 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 311402005851 Cupin domain; Region: Cupin_2; pfam07883 311402005852 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402005853 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402005854 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402005855 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 311402005856 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005857 dimer interface [polypeptide binding]; other site 311402005858 conserved gate region; other site 311402005859 putative PBP binding loops; other site 311402005860 ABC-ATPase subunit interface; other site 311402005861 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402005862 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005863 dimer interface [polypeptide binding]; other site 311402005864 conserved gate region; other site 311402005865 putative PBP binding loops; other site 311402005866 ABC-ATPase subunit interface; other site 311402005867 Melibiase; Region: Melibiase; pfam02065 311402005868 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 311402005869 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402005870 Walker A/P-loop; other site 311402005871 ATP binding site [chemical binding]; other site 311402005872 Q-loop/lid; other site 311402005873 ABC transporter signature motif; other site 311402005874 Walker B; other site 311402005875 D-loop; other site 311402005876 H-loop/switch region; other site 311402005877 TOBE domain; Region: TOBE_2; pfam08402 311402005878 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 311402005879 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 311402005880 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 311402005881 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 311402005882 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 311402005883 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 311402005884 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 311402005885 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 311402005886 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 311402005887 hydroxyglutarate oxidase; Provisional; Region: PRK11728 311402005888 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 311402005889 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 311402005890 conserved cys residue [active] 311402005891 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402005892 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 311402005893 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402005894 non-specific DNA binding site [nucleotide binding]; other site 311402005895 salt bridge; other site 311402005896 sequence-specific DNA binding site [nucleotide binding]; other site 311402005897 Cupin domain; Region: Cupin_2; pfam07883 311402005898 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 311402005899 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 311402005900 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 311402005901 putative active site [active] 311402005902 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 311402005903 domain_subunit interface; other site 311402005904 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 311402005905 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 311402005906 active site 311402005907 FMN binding site [chemical binding]; other site 311402005908 substrate binding site [chemical binding]; other site 311402005909 3Fe-4S cluster binding site [ion binding]; other site 311402005910 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 311402005911 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 311402005912 metabolite-proton symporter; Region: 2A0106; TIGR00883 311402005913 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402005914 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 311402005915 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 311402005916 phosphate binding site [ion binding]; other site 311402005917 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402005918 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402005919 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 311402005920 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 311402005921 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 311402005922 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 311402005923 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402005924 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402005925 Walker A/P-loop; other site 311402005926 ATP binding site [chemical binding]; other site 311402005927 Q-loop/lid; other site 311402005928 ABC transporter signature motif; other site 311402005929 Walker B; other site 311402005930 D-loop; other site 311402005931 H-loop/switch region; other site 311402005932 TOBE domain; Region: TOBE; pfam03459 311402005933 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005934 dimer interface [polypeptide binding]; other site 311402005935 conserved gate region; other site 311402005936 putative PBP binding loops; other site 311402005937 ABC-ATPase subunit interface; other site 311402005938 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402005939 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402005940 dimer interface [polypeptide binding]; other site 311402005941 conserved gate region; other site 311402005942 putative PBP binding loops; other site 311402005943 ABC-ATPase subunit interface; other site 311402005944 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402005945 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402005946 DNA binding site [nucleotide binding] 311402005947 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 311402005948 ligand binding site [chemical binding]; other site 311402005949 dimerization interface [polypeptide binding]; other site 311402005950 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 311402005951 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 311402005952 nucleophile elbow; other site 311402005953 Patatin phospholipase; Region: DUF3734; pfam12536 311402005954 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 311402005955 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 311402005956 NAD binding site [chemical binding]; other site 311402005957 substrate binding site [chemical binding]; other site 311402005958 catalytic Zn binding site [ion binding]; other site 311402005959 tetramer interface [polypeptide binding]; other site 311402005960 structural Zn binding site [ion binding]; other site 311402005961 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 311402005962 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 311402005963 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 311402005964 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 311402005965 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 311402005966 active site 311402005967 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 311402005968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402005969 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 311402005970 dimerization interface [polypeptide binding]; other site 311402005971 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402005972 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402005973 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402005974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402005975 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402005976 dimerization interface [polypeptide binding]; other site 311402005977 Uncharacterized conserved protein [Function unknown]; Region: COG5403 311402005978 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 311402005979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 311402005980 RNA methyltransferase, RsmE family; Region: TIGR00046 311402005981 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 311402005982 Phosphate transporter family; Region: PHO4; pfam01384 311402005983 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 311402005984 nudix motif; other site 311402005985 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 311402005986 FAD binding domain; Region: FAD_binding_4; pfam01565 311402005987 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 311402005988 FAD binding domain; Region: FAD_binding_4; pfam01565 311402005989 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 311402005990 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 311402005991 Cysteine-rich domain; Region: CCG; pfam02754 311402005992 Cysteine-rich domain; Region: CCG; pfam02754 311402005993 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 311402005994 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 311402005995 C-terminal domain interface [polypeptide binding]; other site 311402005996 GSH binding site (G-site) [chemical binding]; other site 311402005997 dimer interface [polypeptide binding]; other site 311402005998 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 311402005999 N-terminal domain interface [polypeptide binding]; other site 311402006000 dimer interface [polypeptide binding]; other site 311402006001 substrate binding pocket (H-site) [chemical binding]; other site 311402006002 Predicted membrane protein [Function unknown]; Region: COG2259 311402006003 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 311402006004 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 311402006005 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 311402006006 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 311402006007 dimer interface [polypeptide binding]; other site 311402006008 active site 311402006009 motif 2; other site 311402006010 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 311402006011 motif 3; other site 311402006012 serC leader; predicted by Infernal 311402006013 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 311402006014 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 311402006015 dimer interface [polypeptide binding]; other site 311402006016 motif 1; other site 311402006017 motif 2; other site 311402006018 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 311402006019 active site 311402006020 motif 3; other site 311402006021 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 311402006022 anticodon binding site; other site 311402006023 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402006024 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402006025 Domain of unknown function (DUF305); Region: DUF305; cl17794 311402006026 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 311402006027 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402006028 motif II; other site 311402006029 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 311402006030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 311402006031 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402006032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 311402006033 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402006034 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 311402006035 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402006036 DNA binding residues [nucleotide binding] 311402006037 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 311402006038 recombination regulator RecX; Reviewed; Region: recX; PRK00117 311402006039 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 311402006040 Prostaglandin dehydrogenases; Region: PGDH; cd05288 311402006041 NAD(P) binding site [chemical binding]; other site 311402006042 substrate binding site [chemical binding]; other site 311402006043 dimer interface [polypeptide binding]; other site 311402006044 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 311402006045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402006046 Coenzyme A binding pocket [chemical binding]; other site 311402006047 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 311402006048 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 311402006049 active site 311402006050 HIGH motif; other site 311402006051 nucleotide binding site [chemical binding]; other site 311402006052 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 311402006053 active site 311402006054 KMSKS motif; other site 311402006055 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 311402006056 tRNA binding surface [nucleotide binding]; other site 311402006057 anticodon binding site; other site 311402006058 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 311402006059 Na binding site [ion binding]; other site 311402006060 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 311402006061 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 311402006062 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 311402006063 dimer interface [polypeptide binding]; other site 311402006064 active site 311402006065 catalytic residue [active] 311402006066 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 311402006067 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 311402006068 active site 311402006069 Riboflavin kinase; Region: Flavokinase; smart00904 311402006070 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 311402006071 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 311402006072 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 311402006073 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 311402006074 Chromate transporter; Region: Chromate_transp; pfam02417 311402006075 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 311402006076 oligomerisation interface [polypeptide binding]; other site 311402006077 mobile loop; other site 311402006078 roof hairpin; other site 311402006079 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 311402006080 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 311402006081 ring oligomerisation interface [polypeptide binding]; other site 311402006082 ATP/Mg binding site [chemical binding]; other site 311402006083 stacking interactions; other site 311402006084 hinge regions; other site 311402006085 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 311402006086 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 311402006087 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 311402006088 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 311402006089 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 311402006090 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402006091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402006092 Walker A/P-loop; other site 311402006093 ATP binding site [chemical binding]; other site 311402006094 Q-loop/lid; other site 311402006095 ABC transporter signature motif; other site 311402006096 Walker B; other site 311402006097 D-loop; other site 311402006098 H-loop/switch region; other site 311402006099 TOBE domain; Region: TOBE_2; pfam08402 311402006100 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402006101 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006102 dimer interface [polypeptide binding]; other site 311402006103 conserved gate region; other site 311402006104 putative PBP binding loops; other site 311402006105 ABC-ATPase subunit interface; other site 311402006106 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402006107 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006108 dimer interface [polypeptide binding]; other site 311402006109 conserved gate region; other site 311402006110 putative PBP binding loops; other site 311402006111 ABC-ATPase subunit interface; other site 311402006112 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 311402006113 FAD binding site [chemical binding]; other site 311402006114 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 311402006115 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 311402006116 dimer interface [polypeptide binding]; other site 311402006117 active site 311402006118 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402006119 catalytic residues [active] 311402006120 substrate binding site [chemical binding]; other site 311402006121 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 311402006122 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 311402006123 NAD(P) binding pocket [chemical binding]; other site 311402006124 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 311402006125 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402006126 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 311402006127 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 311402006128 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402006129 carboxyltransferase (CT) interaction site; other site 311402006130 biotinylation site [posttranslational modification]; other site 311402006131 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 311402006132 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 311402006133 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 311402006134 hypothetical protein; Provisional; Region: PRK05463 311402006135 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 311402006136 putative active site [active] 311402006137 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 311402006138 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402006139 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402006140 DNA-binding site [nucleotide binding]; DNA binding site 311402006141 FCD domain; Region: FCD; pfam07729 311402006142 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402006143 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402006144 putative DNA binding site [nucleotide binding]; other site 311402006145 putative Zn2+ binding site [ion binding]; other site 311402006146 AsnC family; Region: AsnC_trans_reg; pfam01037 311402006147 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 311402006148 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 311402006149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402006150 catalytic residue [active] 311402006151 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 311402006152 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 311402006153 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 311402006154 putative ligand binding site [chemical binding]; other site 311402006155 NAD binding site [chemical binding]; other site 311402006156 dimerization interface [polypeptide binding]; other site 311402006157 catalytic site [active] 311402006158 succinic semialdehyde dehydrogenase; Region: PLN02278 311402006159 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 311402006160 tetramerization interface [polypeptide binding]; other site 311402006161 NAD(P) binding site [chemical binding]; other site 311402006162 catalytic residues [active] 311402006163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402006164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402006165 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 311402006166 putative substrate binding pocket [chemical binding]; other site 311402006167 dimerization interface [polypeptide binding]; other site 311402006168 hypothetical protein; Provisional; Region: PRK12569 311402006169 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402006170 carboxyltransferase (CT) interaction site; other site 311402006171 biotinylation site [posttranslational modification]; other site 311402006172 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 311402006173 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402006174 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311402006175 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 311402006176 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 311402006177 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 311402006178 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 311402006179 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402006180 DNA-binding site [nucleotide binding]; DNA binding site 311402006181 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402006182 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402006183 DNA-binding site [nucleotide binding]; DNA binding site 311402006184 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402006185 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 311402006186 Walker A/P-loop; other site 311402006187 ATP binding site [chemical binding]; other site 311402006188 Q-loop/lid; other site 311402006189 ABC transporter signature motif; other site 311402006190 Walker B; other site 311402006191 D-loop; other site 311402006192 H-loop/switch region; other site 311402006193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006194 dimer interface [polypeptide binding]; other site 311402006195 conserved gate region; other site 311402006196 putative PBP binding loops; other site 311402006197 ABC-ATPase subunit interface; other site 311402006198 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402006199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006200 putative PBP binding loops; other site 311402006201 dimer interface [polypeptide binding]; other site 311402006202 ABC-ATPase subunit interface; other site 311402006203 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 311402006204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402006205 NAD(P) binding site [chemical binding]; other site 311402006206 active site 311402006207 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 311402006208 classical (c) SDRs; Region: SDR_c; cd05233 311402006209 NAD(P) binding site [chemical binding]; other site 311402006210 active site 311402006211 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402006212 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402006213 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402006214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402006215 Walker A/P-loop; other site 311402006216 ATP binding site [chemical binding]; other site 311402006217 Q-loop/lid; other site 311402006218 ABC transporter signature motif; other site 311402006219 Walker B; other site 311402006220 D-loop; other site 311402006221 H-loop/switch region; other site 311402006222 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 311402006223 active site 311402006224 catalytic site [active] 311402006225 Zn binding site [ion binding]; other site 311402006226 tetramer interface [polypeptide binding]; other site 311402006227 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 311402006228 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 311402006229 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311402006230 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 311402006231 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402006232 hypothetical protein; Provisional; Region: PRK06102 311402006233 Amidase; Region: Amidase; cl11426 311402006234 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402006235 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402006236 putative DNA binding site [nucleotide binding]; other site 311402006237 putative Zn2+ binding site [ion binding]; other site 311402006238 AsnC family; Region: AsnC_trans_reg; pfam01037 311402006239 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402006240 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 311402006241 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 311402006242 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 311402006243 Sulfate transporter family; Region: Sulfate_transp; pfam00916 311402006244 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 311402006245 siroheme synthase; Provisional; Region: cysG; PRK10637 311402006246 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 311402006247 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 311402006248 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 311402006249 active site 311402006250 SAM binding site [chemical binding]; other site 311402006251 homodimer interface [polypeptide binding]; other site 311402006252 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 311402006253 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 311402006254 [4Fe-4S] binding site [ion binding]; other site 311402006255 molybdopterin cofactor binding site; other site 311402006256 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 311402006257 molybdopterin cofactor binding site; other site 311402006258 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 311402006259 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 311402006260 [2Fe-2S] cluster binding site [ion binding]; other site 311402006261 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 311402006262 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402006263 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 311402006264 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 311402006265 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 311402006266 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402006267 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402006268 Walker A/P-loop; other site 311402006269 ATP binding site [chemical binding]; other site 311402006270 Q-loop/lid; other site 311402006271 ABC transporter signature motif; other site 311402006272 Walker B; other site 311402006273 D-loop; other site 311402006274 H-loop/switch region; other site 311402006275 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402006276 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006277 dimer interface [polypeptide binding]; other site 311402006278 conserved gate region; other site 311402006279 putative PBP binding loops; other site 311402006280 ABC-ATPase subunit interface; other site 311402006281 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 311402006282 NMT1-like family; Region: NMT1_2; pfam13379 311402006283 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 311402006284 NMT1-like family; Region: NMT1_2; pfam13379 311402006285 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 311402006286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402006287 active site 311402006288 phosphorylation site [posttranslational modification] 311402006289 intermolecular recognition site; other site 311402006290 ANTAR domain; Region: ANTAR; pfam03861 311402006291 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 311402006292 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 311402006293 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 311402006294 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 311402006295 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 311402006296 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402006297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402006298 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 311402006299 dimerization interface [polypeptide binding]; other site 311402006300 substrate binding pocket [chemical binding]; other site 311402006301 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 311402006302 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402006303 FAD binding site [chemical binding]; other site 311402006304 substrate binding pocket [chemical binding]; other site 311402006305 catalytic base [active] 311402006306 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 311402006307 CoA-transferase family III; Region: CoA_transf_3; pfam02515 311402006308 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 311402006309 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 311402006310 homodimer interface [polypeptide binding]; other site 311402006311 homotetramer interface [polypeptide binding]; other site 311402006312 active site pocket [active] 311402006313 cleavage site 311402006314 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 311402006315 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 311402006316 homodimer interface [polypeptide binding]; other site 311402006317 substrate-cofactor binding pocket; other site 311402006318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402006319 catalytic residue [active] 311402006320 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 311402006321 Beta-lactamase; Region: Beta-lactamase; pfam00144 311402006322 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 311402006323 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 311402006324 active site 311402006325 dimer interface [polypeptide binding]; other site 311402006326 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 311402006327 ThiC-associated domain; Region: ThiC-associated; pfam13667 311402006328 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 311402006329 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 311402006330 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 311402006331 thiS-thiF/thiG interaction site; other site 311402006332 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 311402006333 ThiS interaction site; other site 311402006334 putative active site [active] 311402006335 tetramer interface [polypeptide binding]; other site 311402006336 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 311402006337 thiamine phosphate binding site [chemical binding]; other site 311402006338 active site 311402006339 pyrophosphate binding site [ion binding]; other site 311402006340 pyruvate kinase; Validated; Region: PRK08187 311402006341 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 311402006342 domain interfaces; other site 311402006343 active site 311402006344 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 311402006345 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 311402006346 Chain length determinant protein; Region: Wzz; pfam02706 311402006347 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 311402006348 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311402006349 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 311402006350 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 311402006351 active site 311402006352 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 311402006353 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 311402006354 active site 311402006355 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 311402006356 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 311402006357 Ligand binding site; other site 311402006358 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402006359 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 311402006360 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 311402006361 active site 311402006362 active site 311402006363 catalytic residues [active] 311402006364 Acyltransferase family; Region: Acyl_transf_3; pfam01757 311402006365 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 311402006366 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 311402006367 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 311402006368 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 311402006369 active site 311402006370 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 311402006371 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 311402006372 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 311402006373 Exopolysaccharide production repressor; Region: SyrA; pfam11089 311402006374 Bacterial sugar transferase; Region: Bac_transf; pfam02397 311402006375 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 311402006376 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 311402006377 SLBB domain; Region: SLBB; pfam10531 311402006378 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 311402006379 O-Antigen ligase; Region: Wzy_C; pfam04932 311402006380 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 311402006381 Predicted esterase [General function prediction only]; Region: COG0400 311402006382 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 311402006383 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402006384 Zn binding site [ion binding]; other site 311402006385 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 311402006386 Zn binding site [ion binding]; other site 311402006387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402006388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402006389 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402006390 dimerization interface [polypeptide binding]; other site 311402006391 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 311402006392 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 311402006393 SLBB domain; Region: SLBB; pfam10531 311402006394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402006395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402006396 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 311402006397 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 311402006398 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 311402006399 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 311402006400 Fusaric acid resistance protein family; Region: FUSC; pfam04632 311402006401 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 311402006402 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402006403 NAD(P) binding site [chemical binding]; other site 311402006404 catalytic residues [active] 311402006405 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402006406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402006407 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 311402006408 HutD; Region: HutD; pfam05962 311402006409 urocanate hydratase; Provisional; Region: PRK05414 311402006410 N-formylglutamate amidohydrolase; Region: FGase; cl01522 311402006411 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 311402006412 active sites [active] 311402006413 tetramer interface [polypeptide binding]; other site 311402006414 imidazolonepropionase; Validated; Region: PRK09356 311402006415 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 311402006416 active site 311402006417 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 311402006418 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 311402006419 active site 311402006420 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 311402006421 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 311402006422 active site 311402006423 non-prolyl cis peptide bond; other site 311402006424 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 311402006425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402006426 DNA-binding site [nucleotide binding]; DNA binding site 311402006427 UTRA domain; Region: UTRA; pfam07702 311402006428 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402006429 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311402006430 Walker A/P-loop; other site 311402006431 ATP binding site [chemical binding]; other site 311402006432 Q-loop/lid; other site 311402006433 ABC transporter signature motif; other site 311402006434 Walker B; other site 311402006435 D-loop; other site 311402006436 H-loop/switch region; other site 311402006437 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402006438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006439 dimer interface [polypeptide binding]; other site 311402006440 conserved gate region; other site 311402006441 putative PBP binding loops; other site 311402006442 ABC-ATPase subunit interface; other site 311402006443 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006444 dimer interface [polypeptide binding]; other site 311402006445 conserved gate region; other site 311402006446 putative PBP binding loops; other site 311402006447 ABC-ATPase subunit interface; other site 311402006448 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402006449 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402006450 substrate binding pocket [chemical binding]; other site 311402006451 membrane-bound complex binding site; other site 311402006452 hinge residues; other site 311402006453 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 311402006454 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 311402006455 active site 311402006456 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402006457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402006458 Walker A/P-loop; other site 311402006459 ATP binding site [chemical binding]; other site 311402006460 Q-loop/lid; other site 311402006461 ABC transporter signature motif; other site 311402006462 Walker B; other site 311402006463 D-loop; other site 311402006464 H-loop/switch region; other site 311402006465 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402006466 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402006467 TM-ABC transporter signature motif; other site 311402006468 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 311402006469 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402006470 ligand binding site [chemical binding]; other site 311402006471 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 311402006472 non-specific DNA interactions [nucleotide binding]; other site 311402006473 DNA binding site [nucleotide binding] 311402006474 sequence specific DNA binding site [nucleotide binding]; other site 311402006475 putative cAMP binding site [chemical binding]; other site 311402006476 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402006477 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 311402006478 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 311402006479 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 311402006480 classical (c) SDRs; Region: SDR_c; cd05233 311402006481 NAD(P) binding site [chemical binding]; other site 311402006482 active site 311402006483 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402006484 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 311402006485 putative DNA binding site [nucleotide binding]; other site 311402006486 putative Zn2+ binding site [ion binding]; other site 311402006487 AsnC family; Region: AsnC_trans_reg; pfam01037 311402006488 Arginase family; Region: Arginase; cd09989 311402006489 agmatinase; Region: agmatinase; TIGR01230 311402006490 active site 311402006491 Mn binding site [ion binding]; other site 311402006492 oligomer interface [polypeptide binding]; other site 311402006493 ornithine cyclodeaminase; Validated; Region: PRK07589 311402006494 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 311402006495 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 311402006496 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 311402006497 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 311402006498 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 311402006499 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 311402006500 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 311402006501 tonB-system energizer ExbB; Region: exbB; TIGR02797 311402006502 hypothetical protein; Provisional; Region: PRK13682 311402006503 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 311402006504 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402006505 ligand binding site [chemical binding]; other site 311402006506 flexible hinge region; other site 311402006507 putative switch regulator; other site 311402006508 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 311402006509 non-specific DNA interactions [nucleotide binding]; other site 311402006510 DNA binding site [nucleotide binding] 311402006511 sequence specific DNA binding site [nucleotide binding]; other site 311402006512 putative cAMP binding site [chemical binding]; other site 311402006513 Response regulator receiver domain; Region: Response_reg; pfam00072 311402006514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 311402006515 active site 311402006516 phosphorylation site [posttranslational modification] 311402006517 intermolecular recognition site; other site 311402006518 dimerization interface [polypeptide binding]; other site 311402006519 RNA polymerase sigma factor; Provisional; Region: PRK12516 311402006520 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402006521 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402006522 DNA binding residues [nucleotide binding] 311402006523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 311402006524 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 311402006525 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402006526 HWE histidine kinase; Region: HWE_HK; pfam07536 311402006527 two-component response regulator; Provisional; Region: PRK09191 311402006528 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402006529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402006530 active site 311402006531 phosphorylation site [posttranslational modification] 311402006532 intermolecular recognition site; other site 311402006533 dimerization interface [polypeptide binding]; other site 311402006534 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 311402006535 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 311402006536 dimerization interface [polypeptide binding]; other site 311402006537 DPS ferroxidase diiron center [ion binding]; other site 311402006538 ion pore; other site 311402006539 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 311402006540 CsbD-like; Region: CsbD; cl17424 311402006541 ATP-dependent DNA ligase; Validated; Region: PRK09247 311402006542 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 311402006543 active site 311402006544 DNA binding site [nucleotide binding] 311402006545 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 311402006546 DNA binding site [nucleotide binding] 311402006547 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 311402006548 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 311402006549 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402006550 AsnC family; Region: AsnC_trans_reg; pfam01037 311402006551 hypothetical protein; Provisional; Region: PRK06149 311402006552 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 311402006553 active site 311402006554 ATP binding site [chemical binding]; other site 311402006555 substrate binding site [chemical binding]; other site 311402006556 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402006557 inhibitor-cofactor binding pocket; inhibition site 311402006558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402006559 catalytic residue [active] 311402006560 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 311402006561 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 311402006562 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 311402006563 putative active site [active] 311402006564 putative substrate binding site [chemical binding]; other site 311402006565 putative cosubstrate binding site; other site 311402006566 catalytic site [active] 311402006567 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 311402006568 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 311402006569 Chain length determinant protein; Region: Wzz; pfam02706 311402006570 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402006571 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 311402006572 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402006573 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 311402006574 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 311402006575 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 311402006576 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402006577 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 311402006578 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 311402006579 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 311402006580 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 311402006581 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 311402006582 dimer interface [polypeptide binding]; other site 311402006583 motif 1; other site 311402006584 active site 311402006585 motif 2; other site 311402006586 motif 3; other site 311402006587 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 311402006588 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402006589 active site 311402006590 acyl carrier protein; Provisional; Region: PRK07081 311402006591 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 311402006592 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402006593 FeS/SAM binding site; other site 311402006594 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 311402006595 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 311402006596 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 311402006597 motif 1; other site 311402006598 dimer interface [polypeptide binding]; other site 311402006599 active site 311402006600 motif 2; other site 311402006601 motif 3; other site 311402006602 elongation factor P; Validated; Region: PRK00529 311402006603 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 311402006604 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 311402006605 RNA binding site [nucleotide binding]; other site 311402006606 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 311402006607 RNA binding site [nucleotide binding]; other site 311402006608 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 311402006609 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 311402006610 Protein export membrane protein; Region: SecD_SecF; cl14618 311402006611 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 311402006612 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402006613 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402006614 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402006615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402006616 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 311402006617 ATP binding site [chemical binding]; other site 311402006618 active site 311402006619 substrate binding site [chemical binding]; other site 311402006620 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 311402006621 cobalt transport protein CbiM; Validated; Region: PRK06265 311402006622 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 311402006623 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 311402006624 Catalytic domain of Protein Kinases; Region: PKc; cd00180 311402006625 Protein kinase domain; Region: Pkinase; pfam00069 311402006626 active site 311402006627 ATP binding site [chemical binding]; other site 311402006628 substrate binding site [chemical binding]; other site 311402006629 activation loop (A-loop); other site 311402006630 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 311402006631 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 311402006632 active site 311402006633 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 311402006634 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 311402006635 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 311402006636 hypothetical protein; Provisional; Region: PRK07033 311402006637 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 311402006638 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 311402006639 ligand binding site [chemical binding]; other site 311402006640 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 311402006641 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 311402006642 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 311402006643 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 311402006644 phosphopeptide binding site; other site 311402006645 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 311402006646 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 311402006647 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 311402006648 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 311402006649 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 311402006650 ImpE protein; Region: ImpE; pfam07024 311402006651 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 311402006652 Protein of unknown function (DUF877); Region: DUF877; pfam05943 311402006653 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 311402006654 Protein of unknown function (DUF877); Region: DUF877; pfam05943 311402006655 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 311402006656 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 311402006657 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 311402006658 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 311402006659 Clp amino terminal domain; Region: Clp_N; pfam02861 311402006660 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402006661 Walker A motif; other site 311402006662 ATP binding site [chemical binding]; other site 311402006663 Walker B motif; other site 311402006664 arginine finger; other site 311402006665 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402006666 Walker A motif; other site 311402006667 ATP binding site [chemical binding]; other site 311402006668 Walker B motif; other site 311402006669 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 311402006670 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 311402006671 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 311402006672 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 311402006673 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 311402006674 Protein export membrane protein; Region: SecD_SecF; pfam02355 311402006675 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 311402006676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 311402006677 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 311402006678 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 311402006679 Flavin binding site [chemical binding]; other site 311402006680 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 311402006681 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 311402006682 active site 311402006683 dimer interface [polypeptide binding]; other site 311402006684 non-prolyl cis peptide bond; other site 311402006685 insertion regions; other site 311402006686 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402006687 dimerization interface [polypeptide binding]; other site 311402006688 putative DNA binding site [nucleotide binding]; other site 311402006689 putative Zn2+ binding site [ion binding]; other site 311402006690 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 311402006691 arsenical-resistance protein; Region: acr3; TIGR00832 311402006692 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 311402006693 ArsC family; Region: ArsC; pfam03960 311402006694 catalytic residues [active] 311402006695 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 311402006696 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 311402006697 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 311402006698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402006699 active site 311402006700 phosphorylation site [posttranslational modification] 311402006701 intermolecular recognition site; other site 311402006702 dimerization interface [polypeptide binding]; other site 311402006703 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402006704 DNA binding site [nucleotide binding] 311402006705 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 311402006706 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 311402006707 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 311402006708 Ligand Binding Site [chemical binding]; other site 311402006709 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 311402006710 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402006711 dimer interface [polypeptide binding]; other site 311402006712 phosphorylation site [posttranslational modification] 311402006713 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402006714 ATP binding site [chemical binding]; other site 311402006715 Mg2+ binding site [ion binding]; other site 311402006716 G-X-G motif; other site 311402006717 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 311402006718 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 311402006719 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 311402006720 Soluble P-type ATPase [General function prediction only]; Region: COG4087 311402006721 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 311402006722 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 311402006723 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 311402006724 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 311402006725 ATP binding site [chemical binding]; other site 311402006726 putative Mg++ binding site [ion binding]; other site 311402006727 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402006728 nucleotide binding region [chemical binding]; other site 311402006729 ATP-binding site [chemical binding]; other site 311402006730 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 311402006731 HRDC domain; Region: HRDC; pfam00570 311402006732 hypothetical protein; Provisional; Region: PRK06185 311402006733 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402006734 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402006735 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 311402006736 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402006737 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 311402006738 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 311402006739 active site 311402006740 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402006741 dimer interface [polypeptide binding]; other site 311402006742 substrate binding site [chemical binding]; other site 311402006743 catalytic residues [active] 311402006744 AsnC family; Region: AsnC_trans_reg; pfam01037 311402006745 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402006746 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402006747 DNA-binding site [nucleotide binding]; DNA binding site 311402006748 FCD domain; Region: FCD; pfam07729 311402006749 Amino acid synthesis; Region: AA_synth; pfam06684 311402006750 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402006751 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 311402006752 nucleophilic elbow; other site 311402006753 catalytic triad; other site 311402006754 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 311402006755 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 311402006756 nudix motif; other site 311402006757 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402006758 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 311402006759 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402006760 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402006761 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 311402006762 NAD(P) binding site [chemical binding]; other site 311402006763 catalytic residues [active] 311402006764 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402006765 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402006766 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006767 dimer interface [polypeptide binding]; other site 311402006768 conserved gate region; other site 311402006769 putative PBP binding loops; other site 311402006770 ABC-ATPase subunit interface; other site 311402006771 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402006772 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006773 dimer interface [polypeptide binding]; other site 311402006774 conserved gate region; other site 311402006775 putative PBP binding loops; other site 311402006776 ABC-ATPase subunit interface; other site 311402006777 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402006778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402006779 Walker A/P-loop; other site 311402006780 ATP binding site [chemical binding]; other site 311402006781 Q-loop/lid; other site 311402006782 ABC transporter signature motif; other site 311402006783 Walker B; other site 311402006784 D-loop; other site 311402006785 H-loop/switch region; other site 311402006786 TOBE domain; Region: TOBE_2; pfam08402 311402006787 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402006788 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 311402006789 NAD(P) binding site [chemical binding]; other site 311402006790 catalytic residues [active] 311402006791 Amidohydrolase; Region: Amidohydro_2; pfam04909 311402006792 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 311402006793 active site 311402006794 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 311402006795 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402006796 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402006797 active site 311402006798 catalytic tetrad [active] 311402006799 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402006800 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402006801 TM-ABC transporter signature motif; other site 311402006802 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402006803 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402006804 TM-ABC transporter signature motif; other site 311402006805 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402006806 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402006807 Walker A/P-loop; other site 311402006808 ATP binding site [chemical binding]; other site 311402006809 Q-loop/lid; other site 311402006810 ABC transporter signature motif; other site 311402006811 Walker B; other site 311402006812 D-loop; other site 311402006813 H-loop/switch region; other site 311402006814 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402006815 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 311402006816 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 311402006817 ligand binding site [chemical binding]; other site 311402006818 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 311402006819 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 311402006820 putative active site [active] 311402006821 metal binding site [ion binding]; metal-binding site 311402006822 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402006823 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402006824 DNA-binding site [nucleotide binding]; DNA binding site 311402006825 FCD domain; Region: FCD; pfam07729 311402006826 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 311402006827 galactarate dehydratase; Region: galactar-dH20; TIGR03248 311402006828 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 311402006829 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 311402006830 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 311402006831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402006832 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 311402006833 NAD(P) binding site [chemical binding]; other site 311402006834 active site 311402006835 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 311402006836 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 311402006837 dimer interface [polypeptide binding]; other site 311402006838 active site 311402006839 metal binding site [ion binding]; metal-binding site 311402006840 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 311402006841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402006842 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402006843 dimer interface [polypeptide binding]; other site 311402006844 phosphorylation site [posttranslational modification] 311402006845 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402006846 ATP binding site [chemical binding]; other site 311402006847 Mg2+ binding site [ion binding]; other site 311402006848 G-X-G motif; other site 311402006849 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402006850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402006851 active site 311402006852 phosphorylation site [posttranslational modification] 311402006853 intermolecular recognition site; other site 311402006854 dimerization interface [polypeptide binding]; other site 311402006855 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402006856 DNA binding site [nucleotide binding] 311402006857 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402006858 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 311402006859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 311402006860 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 311402006861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 311402006862 hypothetical protein; Provisional; Region: PRK14013 311402006863 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 311402006864 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 311402006865 dimer interface [polypeptide binding]; other site 311402006866 active site 311402006867 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 311402006868 Coenzyme A transferase; Region: CoA_trans; cl17247 311402006869 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 311402006870 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 311402006871 Bacterial transcriptional regulator; Region: IclR; pfam01614 311402006872 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 311402006873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402006874 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 311402006875 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 311402006876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402006877 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402006878 dimerization interface [polypeptide binding]; other site 311402006879 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 311402006880 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311402006881 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 311402006882 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 311402006883 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 311402006884 active site 311402006885 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 311402006886 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 311402006887 heterodimer interface [polypeptide binding]; other site 311402006888 active site 311402006889 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 311402006890 Lyase; Region: Lyase_1; pfam00206 311402006891 tetramer interface [polypeptide binding]; other site 311402006892 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 311402006893 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 311402006894 NADP binding site [chemical binding]; other site 311402006895 dimer interface [polypeptide binding]; other site 311402006896 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 311402006897 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 311402006898 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 311402006899 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402006900 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 311402006901 Walker A/P-loop; other site 311402006902 ATP binding site [chemical binding]; other site 311402006903 Q-loop/lid; other site 311402006904 ABC transporter signature motif; other site 311402006905 Walker B; other site 311402006906 D-loop; other site 311402006907 H-loop/switch region; other site 311402006908 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 311402006909 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402006910 dimer interface [polypeptide binding]; other site 311402006911 conserved gate region; other site 311402006912 ABC-ATPase subunit interface; other site 311402006913 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402006914 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402006915 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 311402006916 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 311402006917 Mechanosensitive ion channel; Region: MS_channel; pfam00924 311402006918 BA14K-like protein; Region: BA14K; pfam07886 311402006919 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402006920 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402006921 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 311402006922 Walker A/P-loop; other site 311402006923 ATP binding site [chemical binding]; other site 311402006924 Q-loop/lid; other site 311402006925 ABC transporter signature motif; other site 311402006926 Walker B; other site 311402006927 D-loop; other site 311402006928 H-loop/switch region; other site 311402006929 two-component sensor protein; Provisional; Region: cpxA; PRK09470 311402006930 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402006931 dimerization interface [polypeptide binding]; other site 311402006932 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402006933 dimer interface [polypeptide binding]; other site 311402006934 phosphorylation site [posttranslational modification] 311402006935 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402006936 ATP binding site [chemical binding]; other site 311402006937 Mg2+ binding site [ion binding]; other site 311402006938 G-X-G motif; other site 311402006939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402006940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402006941 active site 311402006942 phosphorylation site [posttranslational modification] 311402006943 intermolecular recognition site; other site 311402006944 dimerization interface [polypeptide binding]; other site 311402006945 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402006946 DNA binding site [nucleotide binding] 311402006947 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 311402006948 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402006949 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 311402006950 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 311402006951 active site 311402006952 catalytic residues [active] 311402006953 DNA binding site [nucleotide binding] 311402006954 Int/Topo IB signature motif; other site 311402006955 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 311402006956 HNH endonuclease; Region: HNH_3; pfam13392 311402006957 HD domain; Region: HD_3; cl17350 311402006958 DNA polymerase III subunit beta; Validated; Region: PRK05643 311402006959 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 311402006960 putative DNA binding surface [nucleotide binding]; other site 311402006961 dimer interface [polypeptide binding]; other site 311402006962 beta-clamp/clamp loader binding surface; other site 311402006963 beta-clamp/translesion DNA polymerase binding surface; other site 311402006964 ParB-like nuclease domain; Region: ParBc; pfam02195 311402006965 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 311402006966 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402006967 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402006968 non-specific DNA binding site [nucleotide binding]; other site 311402006969 salt bridge; other site 311402006970 sequence-specific DNA binding site [nucleotide binding]; other site 311402006971 Iron-Sulfur binding protein C terminal; Region: LdpA_C; pfam12617 311402006972 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402006973 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402006974 non-specific DNA binding site [nucleotide binding]; other site 311402006975 salt bridge; other site 311402006976 sequence-specific DNA binding site [nucleotide binding]; other site 311402006977 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402006978 non-specific DNA binding site [nucleotide binding]; other site 311402006979 salt bridge; other site 311402006980 sequence-specific DNA binding site [nucleotide binding]; other site 311402006981 Methyltransferase domain; Region: Methyltransf_26; pfam13659 311402006982 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 311402006983 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 311402006984 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 311402006985 cofactor binding site; other site 311402006986 DNA binding site [nucleotide binding] 311402006987 substrate interaction site [chemical binding]; other site 311402006988 Helix-turn-helix domain; Region: HTH_36; pfam13730 311402006989 Phage terminase, small subunit; Region: Terminase_4; pfam05119 311402006990 Phage Terminase; Region: Terminase_1; pfam03354 311402006991 Phage-related protein [Function unknown]; Region: COG4695; cl01923 311402006992 Phage portal protein; Region: Phage_portal; pfam04860 311402006993 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 311402006994 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 311402006995 oligomer interface [polypeptide binding]; other site 311402006996 active site residues [active] 311402006997 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 311402006998 Phage capsid family; Region: Phage_capsid; pfam05065 311402006999 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 311402007000 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 311402007001 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 311402007002 oligomerization interface [polypeptide binding]; other site 311402007003 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 311402007004 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 311402007005 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 311402007006 Putative phage tail protein; Region: Phage-tail_3; pfam13550 311402007007 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 311402007008 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 311402007009 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 311402007010 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 311402007011 Subunit I/III interface [polypeptide binding]; other site 311402007012 Subunit III/IV interface [polypeptide binding]; other site 311402007013 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 311402007014 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 311402007015 D-pathway; other site 311402007016 Putative ubiquinol binding site [chemical binding]; other site 311402007017 Low-spin heme (heme b) binding site [chemical binding]; other site 311402007018 Putative water exit pathway; other site 311402007019 Binuclear center (heme o3/CuB) [ion binding]; other site 311402007020 K-pathway; other site 311402007021 Putative proton exit pathway; other site 311402007022 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 311402007023 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 311402007024 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 311402007025 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 311402007026 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402007027 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402007028 DNA binding residues [nucleotide binding] 311402007029 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 311402007030 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 311402007031 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 311402007032 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 311402007033 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 311402007034 NnrU protein; Region: NnrU; cl17713 311402007035 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 311402007036 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 311402007037 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 311402007038 active site 311402007039 catalytic residues [active] 311402007040 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 311402007041 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 311402007042 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 311402007043 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402007044 dimer interface [polypeptide binding]; other site 311402007045 phosphorylation site [posttranslational modification] 311402007046 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402007047 ATP binding site [chemical binding]; other site 311402007048 Mg2+ binding site [ion binding]; other site 311402007049 G-X-G motif; other site 311402007050 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 311402007051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402007052 active site 311402007053 phosphorylation site [posttranslational modification] 311402007054 intermolecular recognition site; other site 311402007055 dimerization interface [polypeptide binding]; other site 311402007056 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402007057 Walker A motif; other site 311402007058 ATP binding site [chemical binding]; other site 311402007059 Walker B motif; other site 311402007060 arginine finger; other site 311402007061 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402007062 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402007063 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402007064 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402007065 nucleotide binding site [chemical binding]; other site 311402007066 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 311402007067 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 311402007068 active site 311402007069 dimer interface [polypeptide binding]; other site 311402007070 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 311402007071 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 311402007072 dimer interface [polypeptide binding]; other site 311402007073 active site 311402007074 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 311402007075 dimer interface [polypeptide binding]; other site 311402007076 active site 311402007077 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 311402007078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402007079 DNA-binding site [nucleotide binding]; DNA binding site 311402007080 UTRA domain; Region: UTRA; pfam07702 311402007081 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402007082 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402007083 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402007084 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402007085 dimer interface [polypeptide binding]; other site 311402007086 conserved gate region; other site 311402007087 putative PBP binding loops; other site 311402007088 ABC-ATPase subunit interface; other site 311402007089 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402007090 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402007091 dimer interface [polypeptide binding]; other site 311402007092 conserved gate region; other site 311402007093 putative PBP binding loops; other site 311402007094 ABC-ATPase subunit interface; other site 311402007095 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402007096 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402007097 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402007098 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402007099 Walker A/P-loop; other site 311402007100 ATP binding site [chemical binding]; other site 311402007101 Q-loop/lid; other site 311402007102 ABC transporter signature motif; other site 311402007103 Walker B; other site 311402007104 D-loop; other site 311402007105 H-loop/switch region; other site 311402007106 TOBE domain; Region: TOBE_2; pfam08402 311402007107 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 311402007108 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 311402007109 dimer interface [polypeptide binding]; other site 311402007110 active site 311402007111 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402007112 substrate binding site [chemical binding]; other site 311402007113 catalytic residue [active] 311402007114 Uncharacterized conserved protein [Function unknown]; Region: COG5476 311402007115 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 311402007116 MlrC C-terminus; Region: MlrC_C; pfam07171 311402007117 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 311402007118 homotrimer interaction site [polypeptide binding]; other site 311402007119 putative active site [active] 311402007120 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 311402007121 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 311402007122 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 311402007123 putative active site [active] 311402007124 short chain dehydrogenase; Provisional; Region: PRK07074 311402007125 classical (c) SDRs; Region: SDR_c; cd05233 311402007126 NAD(P) binding site [chemical binding]; other site 311402007127 active site 311402007128 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 311402007129 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 311402007130 active site 311402007131 Uncharacterized conserved protein [Function unknown]; Region: COG5476 311402007132 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 311402007133 MlrC C-terminus; Region: MlrC_C; pfam07171 311402007134 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 311402007135 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 311402007136 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402007137 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402007138 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 311402007139 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 311402007140 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 311402007141 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 311402007142 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 311402007143 sensor protein QseC; Provisional; Region: PRK10337 311402007144 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402007145 dimer interface [polypeptide binding]; other site 311402007146 phosphorylation site [posttranslational modification] 311402007147 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402007148 ATP binding site [chemical binding]; other site 311402007149 Mg2+ binding site [ion binding]; other site 311402007150 G-X-G motif; other site 311402007151 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402007152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402007153 active site 311402007154 phosphorylation site [posttranslational modification] 311402007155 intermolecular recognition site; other site 311402007156 dimerization interface [polypeptide binding]; other site 311402007157 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402007158 DNA binding site [nucleotide binding] 311402007159 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 311402007160 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 311402007161 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 311402007162 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 311402007163 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase; Region: RhaD_aldol-ADH; TIGR02632 311402007164 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 311402007165 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 311402007166 putative NAD(P) binding site [chemical binding]; other site 311402007167 active site 311402007168 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 311402007169 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 311402007170 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 311402007171 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 311402007172 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 311402007173 ligand binding site [chemical binding]; other site 311402007174 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402007175 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402007176 Walker A/P-loop; other site 311402007177 ATP binding site [chemical binding]; other site 311402007178 Q-loop/lid; other site 311402007179 ABC transporter signature motif; other site 311402007180 Walker B; other site 311402007181 D-loop; other site 311402007182 H-loop/switch region; other site 311402007183 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402007184 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402007185 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402007186 TM-ABC transporter signature motif; other site 311402007187 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402007188 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402007189 TM-ABC transporter signature motif; other site 311402007190 Domain of unknown function (DUF718); Region: DUF718; pfam05336 311402007191 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 311402007192 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 311402007193 N- and C-terminal domain interface [polypeptide binding]; other site 311402007194 putative active site [active] 311402007195 putative MgATP binding site [chemical binding]; other site 311402007196 putative catalytic site [active] 311402007197 metal binding site [ion binding]; metal-binding site 311402007198 putative carbohydrate binding site [chemical binding]; other site 311402007199 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 311402007200 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402007201 GAF domain; Region: GAF; pfam01590 311402007202 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402007203 metal binding site [ion binding]; metal-binding site 311402007204 active site 311402007205 I-site; other site 311402007206 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402007207 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 311402007208 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402007209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402007210 dimer interface [polypeptide binding]; other site 311402007211 conserved gate region; other site 311402007212 putative PBP binding loops; other site 311402007213 ABC-ATPase subunit interface; other site 311402007214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402007215 dimer interface [polypeptide binding]; other site 311402007216 conserved gate region; other site 311402007217 putative PBP binding loops; other site 311402007218 ABC-ATPase subunit interface; other site 311402007219 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402007220 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402007221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402007222 Walker A/P-loop; other site 311402007223 ATP binding site [chemical binding]; other site 311402007224 Q-loop/lid; other site 311402007225 ABC transporter signature motif; other site 311402007226 Walker B; other site 311402007227 D-loop; other site 311402007228 H-loop/switch region; other site 311402007229 TOBE domain; Region: TOBE_2; pfam08402 311402007230 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402007231 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402007232 DNA-binding site [nucleotide binding]; DNA binding site 311402007233 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 311402007234 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 311402007235 active site 311402007236 DNA binding site [nucleotide binding] 311402007237 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 311402007238 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 311402007239 Walker A/P-loop; other site 311402007240 ATP binding site [chemical binding]; other site 311402007241 Q-loop/lid; other site 311402007242 ABC transporter signature motif; other site 311402007243 Walker B; other site 311402007244 D-loop; other site 311402007245 H-loop/switch region; other site 311402007246 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 311402007247 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 311402007248 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 311402007249 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 311402007250 PEP synthetase regulatory protein; Provisional; Region: PRK05339 311402007251 Maf-like protein; Region: Maf; pfam02545 311402007252 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 311402007253 active site 311402007254 dimer interface [polypeptide binding]; other site 311402007255 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 311402007256 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 311402007257 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 311402007258 shikimate binding site; other site 311402007259 NAD(P) binding site [chemical binding]; other site 311402007260 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 311402007261 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 311402007262 CoA-binding site [chemical binding]; other site 311402007263 ATP-binding [chemical binding]; other site 311402007264 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 311402007265 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 311402007266 active site 311402007267 catalytic site [active] 311402007268 substrate binding site [chemical binding]; other site 311402007269 preprotein translocase subunit SecB; Validated; Region: PRK05751 311402007270 SecA binding site; other site 311402007271 Preprotein binding site; other site 311402007272 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 311402007273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 311402007274 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 311402007275 MltA specific insert domain; Region: MltA; smart00925 311402007276 3D domain; Region: 3D; pfam06725 311402007277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 311402007278 Smr domain; Region: Smr; pfam01713 311402007279 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402007280 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402007281 non-specific DNA binding site [nucleotide binding]; other site 311402007282 salt bridge; other site 311402007283 sequence-specific DNA binding site [nucleotide binding]; other site 311402007284 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 311402007285 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402007286 Mg2+ binding site [ion binding]; other site 311402007287 G-X-G motif; other site 311402007288 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 311402007289 anchoring element; other site 311402007290 dimer interface [polypeptide binding]; other site 311402007291 ATP binding site [chemical binding]; other site 311402007292 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 311402007293 active site 311402007294 putative metal-binding site [ion binding]; other site 311402007295 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 311402007296 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 311402007297 putative FMN binding site [chemical binding]; other site 311402007298 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 311402007299 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 311402007300 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 311402007301 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 311402007302 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 311402007303 active site 311402007304 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 311402007305 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 311402007306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402007307 catalytic residue [active] 311402007308 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 311402007309 substrate binding site [chemical binding]; other site 311402007310 active site 311402007311 catalytic residues [active] 311402007312 heterodimer interface [polypeptide binding]; other site 311402007313 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 311402007314 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 311402007315 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 311402007316 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 311402007317 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 311402007318 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 311402007319 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 311402007320 catalytic residues [active] 311402007321 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 311402007322 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 311402007323 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402007324 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 311402007325 Walker A motif; other site 311402007326 ATP binding site [chemical binding]; other site 311402007327 active site 311402007328 nucleotide-binding site [chemical binding]; other site 311402007329 metal-binding site [ion binding] 311402007330 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 311402007331 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 311402007332 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 311402007333 active site 311402007334 HslU subunit interaction site [polypeptide binding]; other site 311402007335 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 311402007336 putative active site pocket [active] 311402007337 4-fold oligomerization interface [polypeptide binding]; other site 311402007338 metal binding residues [ion binding]; metal-binding site 311402007339 3-fold/trimer interface [polypeptide binding]; other site 311402007340 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 311402007341 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 311402007342 putative active site [active] 311402007343 oxyanion strand; other site 311402007344 catalytic triad [active] 311402007345 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 311402007346 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 311402007347 catalytic residues [active] 311402007348 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 311402007349 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 311402007350 substrate binding site [chemical binding]; other site 311402007351 glutamase interaction surface [polypeptide binding]; other site 311402007352 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 311402007353 metal binding site [ion binding]; metal-binding site 311402007354 pantothenate kinase; Provisional; Region: PRK05439 311402007355 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 311402007356 ATP-binding site [chemical binding]; other site 311402007357 CoA-binding site [chemical binding]; other site 311402007358 Mg2+-binding site [ion binding]; other site 311402007359 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 311402007360 hypothetical protein; Provisional; Region: PRK09256 311402007361 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 311402007362 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 311402007363 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 311402007364 active site 311402007365 substrate-binding site [chemical binding]; other site 311402007366 metal-binding site [ion binding] 311402007367 ATP binding site [chemical binding]; other site 311402007368 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402007369 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402007370 active site 311402007371 phosphorylation site [posttranslational modification] 311402007372 intermolecular recognition site; other site 311402007373 dimerization interface [polypeptide binding]; other site 311402007374 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402007375 DNA binding site [nucleotide binding] 311402007376 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 311402007377 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 311402007378 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402007379 HAMP domain; Region: HAMP; pfam00672 311402007380 dimerization interface [polypeptide binding]; other site 311402007381 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402007382 dimer interface [polypeptide binding]; other site 311402007383 phosphorylation site [posttranslational modification] 311402007384 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402007385 ATP binding site [chemical binding]; other site 311402007386 Mg2+ binding site [ion binding]; other site 311402007387 G-X-G motif; other site 311402007388 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 311402007389 Hpr binding site; other site 311402007390 active site 311402007391 homohexamer subunit interaction site [polypeptide binding]; other site 311402007392 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 311402007393 active pocket/dimerization site; other site 311402007394 active site 311402007395 phosphorylation site [posttranslational modification] 311402007396 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 311402007397 regulatory protein interface [polypeptide binding]; other site 311402007398 active site 311402007399 regulatory phosphorylation site [posttranslational modification]; other site 311402007400 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 311402007401 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 311402007402 homotetramer interface [polypeptide binding]; other site 311402007403 ligand binding site [chemical binding]; other site 311402007404 catalytic site [active] 311402007405 NAD binding site [chemical binding]; other site 311402007406 PAS fold; Region: PAS_7; pfam12860 311402007407 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 311402007408 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402007409 dimer interface [polypeptide binding]; other site 311402007410 phosphorylation site [posttranslational modification] 311402007411 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402007412 ATP binding site [chemical binding]; other site 311402007413 Mg2+ binding site [ion binding]; other site 311402007414 G-X-G motif; other site 311402007415 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 311402007416 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 311402007417 Phosphotransferase enzyme family; Region: APH; pfam01636 311402007418 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 311402007419 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 311402007420 Substrate binding site; other site 311402007421 metal-binding site 311402007422 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 311402007423 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 311402007424 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 311402007425 Part of AAA domain; Region: AAA_19; pfam13245 311402007426 Family description; Region: UvrD_C_2; pfam13538 311402007427 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 311402007428 malate synthase G; Provisional; Region: PRK02999 311402007429 active site 311402007430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 311402007431 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402007432 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 311402007433 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 311402007434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402007435 active site 311402007436 phosphorylation site [posttranslational modification] 311402007437 intermolecular recognition site; other site 311402007438 dimerization interface [polypeptide binding]; other site 311402007439 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 311402007440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402007441 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402007442 dimer interface [polypeptide binding]; other site 311402007443 phosphorylation site [posttranslational modification] 311402007444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402007445 ATP binding site [chemical binding]; other site 311402007446 Mg2+ binding site [ion binding]; other site 311402007447 G-X-G motif; other site 311402007448 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 311402007449 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 311402007450 ATP binding site [chemical binding]; other site 311402007451 putative Mg++ binding site [ion binding]; other site 311402007452 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402007453 nucleotide binding region [chemical binding]; other site 311402007454 ATP-binding site [chemical binding]; other site 311402007455 Helicase associated domain (HA2); Region: HA2; pfam04408 311402007456 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 311402007457 ornithine cyclodeaminase; Validated; Region: PRK06141 311402007458 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 311402007459 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402007460 benzoate transport; Region: 2A0115; TIGR00895 311402007461 putative substrate translocation pore; other site 311402007462 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402007463 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 311402007464 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 311402007465 inhibitor site; inhibition site 311402007466 active site 311402007467 dimer interface [polypeptide binding]; other site 311402007468 catalytic residue [active] 311402007469 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402007470 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402007471 DNA binding site [nucleotide binding] 311402007472 domain linker motif; other site 311402007473 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 311402007474 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 311402007475 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402007476 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402007477 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 311402007478 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 311402007479 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 311402007480 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 311402007481 putative active site [active] 311402007482 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402007483 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 311402007484 substrate binding site [chemical binding]; other site 311402007485 ATP binding site [chemical binding]; other site 311402007486 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 311402007487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 311402007488 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 311402007489 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 311402007490 PYR/PP interface [polypeptide binding]; other site 311402007491 dimer interface [polypeptide binding]; other site 311402007492 TPP binding site [chemical binding]; other site 311402007493 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 311402007494 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 311402007495 TPP-binding site; other site 311402007496 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 311402007497 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 311402007498 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 311402007499 C factor cell-cell signaling protein; Provisional; Region: PRK09009 311402007500 NADP binding site [chemical binding]; other site 311402007501 homodimer interface [polypeptide binding]; other site 311402007502 active site 311402007503 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 311402007504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402007505 NAD(P) binding site [chemical binding]; other site 311402007506 active site 311402007507 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 311402007508 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402007509 S-adenosylmethionine binding site [chemical binding]; other site 311402007510 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 311402007511 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 311402007512 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402007513 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 311402007514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402007515 DNA binding residues [nucleotide binding] 311402007516 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 311402007517 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 311402007518 Putative zinc-finger; Region: zf-HC2; pfam13490 311402007519 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 311402007520 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 311402007521 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 311402007522 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 311402007523 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 311402007524 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 311402007525 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 311402007526 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402007527 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 311402007528 Walker A/P-loop; other site 311402007529 ATP binding site [chemical binding]; other site 311402007530 Q-loop/lid; other site 311402007531 ABC transporter signature motif; other site 311402007532 Walker B; other site 311402007533 D-loop; other site 311402007534 H-loop/switch region; other site 311402007535 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402007536 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 311402007537 Walker A/P-loop; other site 311402007538 ATP binding site [chemical binding]; other site 311402007539 Q-loop/lid; other site 311402007540 ABC transporter signature motif; other site 311402007541 Walker B; other site 311402007542 D-loop; other site 311402007543 H-loop/switch region; other site 311402007544 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402007545 dimer interface [polypeptide binding]; other site 311402007546 conserved gate region; other site 311402007547 putative PBP binding loops; other site 311402007548 ABC-ATPase subunit interface; other site 311402007549 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402007550 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402007551 dimer interface [polypeptide binding]; other site 311402007552 conserved gate region; other site 311402007553 putative PBP binding loops; other site 311402007554 ABC-ATPase subunit interface; other site 311402007555 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 311402007556 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402007557 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402007558 Cytochrome c2 [Energy production and conversion]; Region: COG3474 311402007559 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 311402007560 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 311402007561 Ligand binding site; other site 311402007562 oligomer interface; other site 311402007563 prephenate dehydratase; Provisional; Region: PRK11899 311402007564 Prephenate dehydratase; Region: PDT; pfam00800 311402007565 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 311402007566 putative L-Phe binding site [chemical binding]; other site 311402007567 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 311402007568 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 311402007569 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 311402007570 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 311402007571 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 311402007572 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 311402007573 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 311402007574 putative NADH binding site [chemical binding]; other site 311402007575 putative active site [active] 311402007576 nudix motif; other site 311402007577 putative metal binding site [ion binding]; other site 311402007578 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 311402007579 nucleotide binding site/active site [active] 311402007580 HIT family signature motif; other site 311402007581 catalytic residue [active] 311402007582 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 311402007583 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402007584 Walker A motif; other site 311402007585 ATP binding site [chemical binding]; other site 311402007586 Walker B motif; other site 311402007587 arginine finger; other site 311402007588 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 311402007589 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 311402007590 hypothetical protein; Validated; Region: PRK00153 311402007591 Rdx family; Region: Rdx; cl01407 311402007592 Uncharacterized conserved protein [Function unknown]; Region: COG3422 311402007593 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 311402007594 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402007595 Coenzyme A binding pocket [chemical binding]; other site 311402007596 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402007597 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402007598 non-specific DNA binding site [nucleotide binding]; other site 311402007599 salt bridge; other site 311402007600 sequence-specific DNA binding site [nucleotide binding]; other site 311402007601 Cupin domain; Region: Cupin_2; pfam07883 311402007602 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 311402007603 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 311402007604 nucleotide binding site [chemical binding]; other site 311402007605 SulA interaction site; other site 311402007606 GTP-binding protein LepA; Provisional; Region: PRK05433 311402007607 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 311402007608 G1 box; other site 311402007609 putative GEF interaction site [polypeptide binding]; other site 311402007610 GTP/Mg2+ binding site [chemical binding]; other site 311402007611 Switch I region; other site 311402007612 G2 box; other site 311402007613 G3 box; other site 311402007614 Switch II region; other site 311402007615 G4 box; other site 311402007616 G5 box; other site 311402007617 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 311402007618 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 311402007619 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 311402007620 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 311402007621 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 311402007622 catalytic site [active] 311402007623 putative active site [active] 311402007624 putative substrate binding site [chemical binding]; other site 311402007625 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 311402007626 Sulfatase; Region: Sulfatase; cl17466 311402007627 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 311402007628 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 311402007629 active site 311402007630 substrate binding site [chemical binding]; other site 311402007631 metal binding site [ion binding]; metal-binding site 311402007632 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 311402007633 Predicted permeases [General function prediction only]; Region: COG0679 311402007634 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 311402007635 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 311402007636 active site 311402007637 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 311402007638 ArsC family; Region: ArsC; pfam03960 311402007639 putative catalytic residues [active] 311402007640 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 311402007641 putative deacylase active site [active] 311402007642 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 311402007643 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 311402007644 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 311402007645 DNA-binding site [nucleotide binding]; DNA binding site 311402007646 RNA-binding motif; other site 311402007647 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 311402007648 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 311402007649 generic binding surface II; other site 311402007650 generic binding surface I; other site 311402007651 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 311402007652 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 311402007653 Ligand binding site; other site 311402007654 Putative Catalytic site; other site 311402007655 DXD motif; other site 311402007656 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402007657 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402007658 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 311402007659 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402007660 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402007661 active site 311402007662 catalytic tetrad [active] 311402007663 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402007664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402007665 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 311402007666 putative effector binding pocket; other site 311402007667 putative dimerization interface [polypeptide binding]; other site 311402007668 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402007669 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402007670 active site 311402007671 catalytic tetrad [active] 311402007672 Protein of unknown function (DUF992); Region: DUF992; pfam06186 311402007673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 311402007674 MOSC domain; Region: MOSC; pfam03473 311402007675 recombination protein RecR; Reviewed; Region: recR; PRK00076 311402007676 RecR protein; Region: RecR; pfam02132 311402007677 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 311402007678 putative active site [active] 311402007679 putative metal-binding site [ion binding]; other site 311402007680 tetramer interface [polypeptide binding]; other site 311402007681 Transglycosylase SLT domain; Region: SLT_2; pfam13406 311402007682 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402007683 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402007684 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402007685 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007686 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007687 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007688 hypothetical protein; Provisional; Region: PHA03169 311402007689 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007690 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007691 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007692 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007693 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007694 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007695 Protein of unknown function (DUF563); Region: DUF563; pfam04577 311402007696 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007697 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007698 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007699 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402007700 Transmembrane secretion effector; Region: MFS_3; pfam05977 311402007701 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402007702 putative substrate translocation pore; other site 311402007703 ribosome maturation protein RimP; Reviewed; Region: PRK00092 311402007704 Sm and related proteins; Region: Sm_like; cl00259 311402007705 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 311402007706 putative oligomer interface [polypeptide binding]; other site 311402007707 putative RNA binding site [nucleotide binding]; other site 311402007708 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 311402007709 NusA N-terminal domain; Region: NusA_N; pfam08529 311402007710 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 311402007711 RNA binding site [nucleotide binding]; other site 311402007712 homodimer interface [polypeptide binding]; other site 311402007713 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 311402007714 G-X-X-G motif; other site 311402007715 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 311402007716 G-X-X-G motif; other site 311402007717 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 311402007718 hypothetical protein; Provisional; Region: PRK09190 311402007719 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 311402007720 putative RNA binding cleft [nucleotide binding]; other site 311402007721 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 311402007722 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 311402007723 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 311402007724 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 311402007725 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 311402007726 G1 box; other site 311402007727 putative GEF interaction site [polypeptide binding]; other site 311402007728 GTP/Mg2+ binding site [chemical binding]; other site 311402007729 Switch I region; other site 311402007730 G2 box; other site 311402007731 G3 box; other site 311402007732 Switch II region; other site 311402007733 G4 box; other site 311402007734 G5 box; other site 311402007735 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 311402007736 Translation-initiation factor 2; Region: IF-2; pfam11987 311402007737 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 311402007738 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 311402007739 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 311402007740 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 311402007741 RNA binding site [nucleotide binding]; other site 311402007742 active site 311402007743 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 311402007744 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 311402007745 16S/18S rRNA binding site [nucleotide binding]; other site 311402007746 S13e-L30e interaction site [polypeptide binding]; other site 311402007747 25S rRNA binding site [nucleotide binding]; other site 311402007748 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 311402007749 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 311402007750 RNase E interface [polypeptide binding]; other site 311402007751 trimer interface [polypeptide binding]; other site 311402007752 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 311402007753 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 311402007754 RNase E interface [polypeptide binding]; other site 311402007755 trimer interface [polypeptide binding]; other site 311402007756 active site 311402007757 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 311402007758 putative nucleic acid binding region [nucleotide binding]; other site 311402007759 G-X-X-G motif; other site 311402007760 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 311402007761 RNA binding site [nucleotide binding]; other site 311402007762 domain interface; other site 311402007763 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 311402007764 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 311402007765 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 311402007766 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 311402007767 NAD binding site [chemical binding]; other site 311402007768 homotetramer interface [polypeptide binding]; other site 311402007769 homodimer interface [polypeptide binding]; other site 311402007770 substrate binding site [chemical binding]; other site 311402007771 active site 311402007772 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 311402007773 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 311402007774 dimer interface [polypeptide binding]; other site 311402007775 active site 311402007776 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 311402007777 active site 1 [active] 311402007778 dimer interface [polypeptide binding]; other site 311402007779 active site 2 [active] 311402007780 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 311402007781 metal binding site 2 [ion binding]; metal-binding site 311402007782 putative DNA binding helix; other site 311402007783 metal binding site 1 [ion binding]; metal-binding site 311402007784 dimer interface [polypeptide binding]; other site 311402007785 Predicted membrane protein [Function unknown]; Region: COG2860 311402007786 UPF0126 domain; Region: UPF0126; pfam03458 311402007787 UPF0126 domain; Region: UPF0126; pfam03458 311402007788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402007789 metabolite-proton symporter; Region: 2A0106; TIGR00883 311402007790 putative substrate translocation pore; other site 311402007791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 311402007792 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 311402007793 cytidylate kinase; Provisional; Region: cmk; PRK00023 311402007794 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 311402007795 CMP-binding site; other site 311402007796 The sites determining sugar specificity; other site 311402007797 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 311402007798 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 311402007799 RNA binding site [nucleotide binding]; other site 311402007800 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 311402007801 RNA binding site [nucleotide binding]; other site 311402007802 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 311402007803 RNA binding site [nucleotide binding]; other site 311402007804 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 311402007805 RNA binding site [nucleotide binding]; other site 311402007806 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 311402007807 RNA binding site [nucleotide binding]; other site 311402007808 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 311402007809 RNA binding site [nucleotide binding]; other site 311402007810 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 311402007811 diiron binding motif [ion binding]; other site 311402007812 Uncharacterized conserved protein [Function unknown]; Region: COG1633 311402007813 CCC1-related protein family; Region: CCC1_like_1; cd02437 311402007814 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 311402007815 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402007816 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 311402007817 translation initiation factor IF-3; Region: infC; TIGR00168 311402007818 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 311402007819 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 311402007820 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402007821 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402007822 active site 311402007823 phosphorylation site [posttranslational modification] 311402007824 intermolecular recognition site; other site 311402007825 dimerization interface [polypeptide binding]; other site 311402007826 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402007827 DNA binding site [nucleotide binding] 311402007828 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402007829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402007830 ATP binding site [chemical binding]; other site 311402007831 Mg2+ binding site [ion binding]; other site 311402007832 G-X-G motif; other site 311402007833 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 311402007834 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 311402007835 23S rRNA binding site [nucleotide binding]; other site 311402007836 L21 binding site [polypeptide binding]; other site 311402007837 L13 binding site [polypeptide binding]; other site 311402007838 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 311402007839 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 311402007840 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 311402007841 dimer interface [polypeptide binding]; other site 311402007842 motif 1; other site 311402007843 active site 311402007844 motif 2; other site 311402007845 motif 3; other site 311402007846 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 311402007847 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 311402007848 putative tRNA-binding site [nucleotide binding]; other site 311402007849 B3/4 domain; Region: B3_4; pfam03483 311402007850 tRNA synthetase B5 domain; Region: B5; smart00874 311402007851 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 311402007852 dimer interface [polypeptide binding]; other site 311402007853 motif 1; other site 311402007854 motif 3; other site 311402007855 motif 2; other site 311402007856 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 311402007857 BA14K-like protein; Region: BA14K; pfam07886 311402007858 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 311402007859 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 311402007860 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 311402007861 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 311402007862 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 311402007863 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 311402007864 ATP binding site [chemical binding]; other site 311402007865 Walker A motif; other site 311402007866 hexamer interface [polypeptide binding]; other site 311402007867 Walker B motif; other site 311402007868 AAA domain; Region: AAA_31; pfam13614 311402007869 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 311402007870 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 311402007871 Type IV pili component [Cell motility and secretion]; Region: COG5461 311402007872 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 311402007873 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 311402007874 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 311402007875 BON domain; Region: BON; pfam04972 311402007876 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 311402007877 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 311402007878 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 311402007879 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 311402007880 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 311402007881 Flp/Fap pilin component; Region: Flp_Fap; cl01585 311402007882 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 311402007883 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 311402007884 TadE-like protein; Region: TadE; pfam07811 311402007885 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 311402007886 phosphopentomutase; Provisional; Region: PRK05362 311402007887 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 311402007888 adenosine deaminase; Provisional; Region: PRK09358 311402007889 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 311402007890 active site 311402007891 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402007892 active site 311402007893 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 311402007894 catalytic motif [active] 311402007895 Catalytic residue [active] 311402007896 LysE type translocator; Region: LysE; cl00565 311402007897 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 311402007898 catalytic core [active] 311402007899 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 311402007900 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 311402007901 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 311402007902 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402007903 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402007904 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 311402007905 Walker A/P-loop; other site 311402007906 ATP binding site [chemical binding]; other site 311402007907 Q-loop/lid; other site 311402007908 ABC transporter signature motif; other site 311402007909 Walker B; other site 311402007910 D-loop; other site 311402007911 H-loop/switch region; other site 311402007912 glucokinase; Provisional; Region: glk; PRK00292 311402007913 glucokinase, proteobacterial type; Region: glk; TIGR00749 311402007914 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 311402007915 active site 311402007916 dimer interfaces [polypeptide binding]; other site 311402007917 catalytic residues [active] 311402007918 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 311402007919 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 311402007920 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 311402007921 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 311402007922 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 311402007923 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402007924 dimer interface [polypeptide binding]; other site 311402007925 conserved gate region; other site 311402007926 putative PBP binding loops; other site 311402007927 ABC-ATPase subunit interface; other site 311402007928 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 311402007929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402007930 dimer interface [polypeptide binding]; other site 311402007931 conserved gate region; other site 311402007932 putative PBP binding loops; other site 311402007933 ABC-ATPase subunit interface; other site 311402007934 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 311402007935 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402007936 Walker A/P-loop; other site 311402007937 ATP binding site [chemical binding]; other site 311402007938 Q-loop/lid; other site 311402007939 ABC transporter signature motif; other site 311402007940 Walker B; other site 311402007941 D-loop; other site 311402007942 H-loop/switch region; other site 311402007943 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 311402007944 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402007945 Walker A/P-loop; other site 311402007946 ATP binding site [chemical binding]; other site 311402007947 Q-loop/lid; other site 311402007948 ABC transporter signature motif; other site 311402007949 Walker B; other site 311402007950 D-loop; other site 311402007951 H-loop/switch region; other site 311402007952 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 311402007953 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 311402007954 putative ligand binding site [chemical binding]; other site 311402007955 NAD binding site [chemical binding]; other site 311402007956 dimerization interface [polypeptide binding]; other site 311402007957 catalytic site [active] 311402007958 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 311402007959 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 311402007960 active site 311402007961 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 311402007962 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 311402007963 ligand binding site [chemical binding]; other site 311402007964 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 311402007965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402007966 Walker A/P-loop; other site 311402007967 ATP binding site [chemical binding]; other site 311402007968 Q-loop/lid; other site 311402007969 ABC transporter signature motif; other site 311402007970 Walker B; other site 311402007971 D-loop; other site 311402007972 H-loop/switch region; other site 311402007973 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402007974 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402007975 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402007976 TM-ABC transporter signature motif; other site 311402007977 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402007978 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402007979 TM-ABC transporter signature motif; other site 311402007980 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 311402007981 active site 311402007982 catalytic motif [active] 311402007983 Zn binding site [ion binding]; other site 311402007984 purine nucleoside phosphorylase; Provisional; Region: PRK08202 311402007985 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 311402007986 intersubunit interface [polypeptide binding]; other site 311402007987 active site 311402007988 catalytic residue [active] 311402007989 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 311402007990 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 311402007991 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 311402007992 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 311402007993 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 311402007994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402007995 DNA-binding site [nucleotide binding]; DNA binding site 311402007996 UTRA domain; Region: UTRA; pfam07702 311402007997 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 311402007998 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 311402007999 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 311402008000 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 311402008001 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 311402008002 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402008003 Walker A/P-loop; other site 311402008004 ATP binding site [chemical binding]; other site 311402008005 Q-loop/lid; other site 311402008006 ABC transporter signature motif; other site 311402008007 Walker B; other site 311402008008 D-loop; other site 311402008009 H-loop/switch region; other site 311402008010 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402008011 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 311402008012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402008013 Walker A/P-loop; other site 311402008014 ATP binding site [chemical binding]; other site 311402008015 Q-loop/lid; other site 311402008016 ABC transporter signature motif; other site 311402008017 Walker B; other site 311402008018 D-loop; other site 311402008019 H-loop/switch region; other site 311402008020 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 311402008021 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 311402008022 putative trimer interface [polypeptide binding]; other site 311402008023 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 311402008024 trimer interface [polypeptide binding]; other site 311402008025 active site 311402008026 substrate binding site [chemical binding]; other site 311402008027 putative CoA binding site [chemical binding]; other site 311402008028 CoA binding site [chemical binding]; other site 311402008029 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 311402008030 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 311402008031 Walker A/P-loop; other site 311402008032 ATP binding site [chemical binding]; other site 311402008033 Q-loop/lid; other site 311402008034 ABC transporter signature motif; other site 311402008035 Walker B; other site 311402008036 D-loop; other site 311402008037 H-loop/switch region; other site 311402008038 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 311402008039 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 311402008040 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 311402008041 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402008042 dimer interface [polypeptide binding]; other site 311402008043 conserved gate region; other site 311402008044 ABC-ATPase subunit interface; other site 311402008045 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 311402008046 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402008047 dimer interface [polypeptide binding]; other site 311402008048 conserved gate region; other site 311402008049 ABC-ATPase subunit interface; other site 311402008050 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 311402008051 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 311402008052 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402008053 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 311402008054 active site 311402008055 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 311402008056 Guanylate kinase; Region: Guanylate_kin; pfam00625 311402008057 active site 311402008058 LysE type translocator; Region: LysE; cl00565 311402008059 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 311402008060 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 311402008061 TPR motif; other site 311402008062 binding surface 311402008063 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402008064 binding surface 311402008065 TPR motif; other site 311402008066 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 311402008067 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 311402008068 interface (dimer of trimers) [polypeptide binding]; other site 311402008069 Substrate-binding/catalytic site; other site 311402008070 Zn-binding sites [ion binding]; other site 311402008071 Uncharacterized conserved protein [Function unknown]; Region: COG2353 311402008072 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 311402008073 YceI-like domain; Region: YceI; smart00867 311402008074 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311402008075 MarR family; Region: MarR; pfam01047 311402008076 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 311402008077 NlpC/P60 family; Region: NLPC_P60; cl17555 311402008078 DNA polymerase I; Region: pola; TIGR00593 311402008079 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 311402008080 active site 311402008081 metal binding site 1 [ion binding]; metal-binding site 311402008082 putative 5' ssDNA interaction site; other site 311402008083 metal binding site 3; metal-binding site 311402008084 metal binding site 2 [ion binding]; metal-binding site 311402008085 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 311402008086 putative DNA binding site [nucleotide binding]; other site 311402008087 putative metal binding site [ion binding]; other site 311402008088 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 311402008089 active site 311402008090 catalytic site [active] 311402008091 substrate binding site [chemical binding]; other site 311402008092 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 311402008093 active site 311402008094 DNA binding site [nucleotide binding] 311402008095 catalytic site [active] 311402008096 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402008097 MarR family; Region: MarR; pfam01047 311402008098 hypothetical protein; Validated; Region: PRK09104 311402008099 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 311402008100 metal binding site [ion binding]; metal-binding site 311402008101 putative dimer interface [polypeptide binding]; other site 311402008102 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 311402008103 putative deacylase active site [active] 311402008104 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 311402008105 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 311402008106 Transglycosylase; Region: Transgly; pfam00912 311402008107 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 311402008108 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 311402008109 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 311402008110 nucleotide binding site [chemical binding]; other site 311402008111 NEF interaction site [polypeptide binding]; other site 311402008112 SBD interface [polypeptide binding]; other site 311402008113 chaperone protein DnaJ; Provisional; Region: PRK10767 311402008114 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 311402008115 HSP70 interaction site [polypeptide binding]; other site 311402008116 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 311402008117 substrate binding site [polypeptide binding]; other site 311402008118 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 311402008119 Zn binding sites [ion binding]; other site 311402008120 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 311402008121 dimer interface [polypeptide binding]; other site 311402008122 hypothetical protein; Provisional; Region: PRK00736 311402008123 recombination protein F; Reviewed; Region: recF; PRK00064 311402008124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402008125 Walker A/P-loop; other site 311402008126 ATP binding site [chemical binding]; other site 311402008127 Q-loop/lid; other site 311402008128 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402008129 ABC transporter signature motif; other site 311402008130 Walker B; other site 311402008131 D-loop; other site 311402008132 H-loop/switch region; other site 311402008133 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 311402008134 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 311402008135 ATP binding site [chemical binding]; other site 311402008136 substrate interface [chemical binding]; other site 311402008137 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 311402008138 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402008139 Coenzyme A binding pocket [chemical binding]; other site 311402008140 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 311402008141 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 311402008142 dimerization interface [polypeptide binding]; other site 311402008143 ligand binding site [chemical binding]; other site 311402008144 NADP binding site [chemical binding]; other site 311402008145 catalytic site [active] 311402008146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 311402008147 Bacterial SH3 domain; Region: SH3_4; pfam06347 311402008148 Bacterial SH3 domain; Region: SH3_4; pfam06347 311402008149 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 311402008150 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402008151 substrate binding site [chemical binding]; other site 311402008152 ATP binding site [chemical binding]; other site 311402008153 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402008154 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402008155 metal binding site [ion binding]; metal-binding site 311402008156 active site 311402008157 I-site; other site 311402008158 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402008159 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 311402008160 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 311402008161 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311402008162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402008163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402008164 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402008165 dimerization interface [polypeptide binding]; other site 311402008166 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 311402008167 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402008168 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402008169 GMP synthase; Reviewed; Region: guaA; PRK00074 311402008170 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 311402008171 AMP/PPi binding site [chemical binding]; other site 311402008172 candidate oxyanion hole; other site 311402008173 catalytic triad [active] 311402008174 potential glutamine specificity residues [chemical binding]; other site 311402008175 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 311402008176 ATP Binding subdomain [chemical binding]; other site 311402008177 Ligand Binding sites [chemical binding]; other site 311402008178 Dimerization subdomain; other site 311402008179 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 311402008180 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 311402008181 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 311402008182 CoenzymeA binding site [chemical binding]; other site 311402008183 subunit interaction site [polypeptide binding]; other site 311402008184 PHB binding site; other site 311402008185 TspO/MBR family; Region: TspO_MBR; pfam03073 311402008186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 311402008187 Imelysin; Region: Peptidase_M75; cl09159 311402008188 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 311402008189 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 311402008190 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 311402008191 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 311402008192 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402008193 S-adenosylmethionine binding site [chemical binding]; other site 311402008194 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 311402008195 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 311402008196 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402008197 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 311402008198 putative NAD(P) binding site [chemical binding]; other site 311402008199 epoxyqueuosine reductase; Region: TIGR00276 311402008200 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 311402008201 HEAT repeat; Region: HEAT; pfam02985 311402008202 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402008203 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 311402008204 C-terminal domain interface [polypeptide binding]; other site 311402008205 GSH binding site (G-site) [chemical binding]; other site 311402008206 dimer interface [polypeptide binding]; other site 311402008207 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 311402008208 N-terminal domain interface [polypeptide binding]; other site 311402008209 dimer interface [polypeptide binding]; other site 311402008210 substrate binding pocket (H-site) [chemical binding]; other site 311402008211 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 311402008212 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 311402008213 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 311402008214 putative NAD(P) binding site [chemical binding]; other site 311402008215 active site 311402008216 Uncharacterized conserved protein [Function unknown]; Region: COG5470 311402008217 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 311402008218 active site 311402008219 dimer interface [polypeptide binding]; other site 311402008220 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 311402008221 catalytic core [active] 311402008222 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402008223 S-adenosylmethionine binding site [chemical binding]; other site 311402008224 DNA polymerase III subunit beta; Validated; Region: PRK05643 311402008225 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 311402008226 putative DNA binding surface [nucleotide binding]; other site 311402008227 dimer interface [polypeptide binding]; other site 311402008228 beta-clamp/clamp loader binding surface; other site 311402008229 beta-clamp/translesion DNA polymerase binding surface; other site 311402008230 Predicted methyltransferases [General function prediction only]; Region: COG0313 311402008231 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 311402008232 putative SAM binding site [chemical binding]; other site 311402008233 putative homodimer interface [polypeptide binding]; other site 311402008234 hypothetical protein; Reviewed; Region: PRK12497 311402008235 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402008236 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402008237 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402008238 dimer interface [polypeptide binding]; other site 311402008239 conserved gate region; other site 311402008240 ABC-ATPase subunit interface; other site 311402008241 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402008242 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402008243 dimer interface [polypeptide binding]; other site 311402008244 conserved gate region; other site 311402008245 putative PBP binding loops; other site 311402008246 ABC-ATPase subunit interface; other site 311402008247 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402008248 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402008249 Walker A/P-loop; other site 311402008250 ATP binding site [chemical binding]; other site 311402008251 Q-loop/lid; other site 311402008252 ABC transporter signature motif; other site 311402008253 Walker B; other site 311402008254 D-loop; other site 311402008255 H-loop/switch region; other site 311402008256 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 311402008257 glutathione synthetase; Provisional; Region: PRK05246 311402008258 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 311402008259 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 311402008260 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 311402008261 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 311402008262 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402008263 Walker A motif; other site 311402008264 ATP binding site [chemical binding]; other site 311402008265 Walker B motif; other site 311402008266 arginine finger; other site 311402008267 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 311402008268 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 311402008269 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 311402008270 dimer interface [polypeptide binding]; other site 311402008271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402008272 catalytic residue [active] 311402008273 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402008274 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402008275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402008276 Coenzyme A binding pocket [chemical binding]; other site 311402008277 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 311402008278 trimer interface [polypeptide binding]; other site 311402008279 active site 311402008280 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 311402008281 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 311402008282 G1 box; other site 311402008283 putative GEF interaction site [polypeptide binding]; other site 311402008284 GTP/Mg2+ binding site [chemical binding]; other site 311402008285 Switch I region; other site 311402008286 G2 box; other site 311402008287 G3 box; other site 311402008288 Switch II region; other site 311402008289 G4 box; other site 311402008290 G5 box; other site 311402008291 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 311402008292 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 311402008293 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 311402008294 active site 311402008295 homotetramer interface [polypeptide binding]; other site 311402008296 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 311402008297 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 311402008298 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 311402008299 dimer interface [polypeptide binding]; other site 311402008300 substrate binding site [chemical binding]; other site 311402008301 ATP binding site [chemical binding]; other site 311402008302 Uncharacterized conserved protein [Function unknown]; Region: COG3791 311402008303 Putative phosphatase (DUF442); Region: DUF442; cl17385 311402008304 Pirin-related protein [General function prediction only]; Region: COG1741 311402008305 Pirin; Region: Pirin; pfam02678 311402008306 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 311402008307 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 311402008308 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 311402008309 putative active site [active] 311402008310 putative dimer interface [polypeptide binding]; other site 311402008311 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 311402008312 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402008313 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 311402008314 putative dimerization interface [polypeptide binding]; other site 311402008315 putative substrate binding pocket [chemical binding]; other site 311402008316 Chromate transporter; Region: Chromate_transp; pfam02417 311402008317 Chromate transporter; Region: Chromate_transp; pfam02417 311402008318 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 311402008319 Flavoprotein; Region: Flavoprotein; pfam02441 311402008320 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 311402008321 Response regulator receiver domain; Region: Response_reg; pfam00072 311402008322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402008323 active site 311402008324 phosphorylation site [posttranslational modification] 311402008325 intermolecular recognition site; other site 311402008326 dimerization interface [polypeptide binding]; other site 311402008327 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402008328 Histidine kinase; Region: HisKA_2; pfam07568 311402008329 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402008330 ATP binding site [chemical binding]; other site 311402008331 Mg2+ binding site [ion binding]; other site 311402008332 G-X-G motif; other site 311402008333 Response regulator receiver domain; Region: Response_reg; pfam00072 311402008334 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402008335 active site 311402008336 phosphorylation site [posttranslational modification] 311402008337 intermolecular recognition site; other site 311402008338 dimerization interface [polypeptide binding]; other site 311402008339 CHASE3 domain; Region: CHASE3; pfam05227 311402008340 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402008341 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 311402008342 dimer interface [polypeptide binding]; other site 311402008343 phosphorylation site [posttranslational modification] 311402008344 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402008345 ATP binding site [chemical binding]; other site 311402008346 Mg2+ binding site [ion binding]; other site 311402008347 G-X-G motif; other site 311402008348 ABC1 family; Region: ABC1; cl17513 311402008349 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 311402008350 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 311402008351 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402008352 S-adenosylmethionine binding site [chemical binding]; other site 311402008353 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 311402008354 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 311402008355 DNA binding site [nucleotide binding] 311402008356 catalytic residue [active] 311402008357 H2TH interface [polypeptide binding]; other site 311402008358 putative catalytic residues [active] 311402008359 turnover-facilitating residue; other site 311402008360 intercalation triad [nucleotide binding]; other site 311402008361 8OG recognition residue [nucleotide binding]; other site 311402008362 putative reading head residues; other site 311402008363 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 311402008364 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 311402008365 DnaA N-terminal domain; Region: DnaA_N; pfam11638 311402008366 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 311402008367 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402008368 Walker A motif; other site 311402008369 ATP binding site [chemical binding]; other site 311402008370 Walker B motif; other site 311402008371 arginine finger; other site 311402008372 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 311402008373 DnaA box-binding interface [nucleotide binding]; other site 311402008374 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 311402008375 EamA-like transporter family; Region: EamA; pfam00892 311402008376 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402008377 S-adenosylmethionine binding site [chemical binding]; other site 311402008378 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 311402008379 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402008380 FeS/SAM binding site; other site 311402008381 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 311402008382 active site 311402008383 dimerization interface [polypeptide binding]; other site 311402008384 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402008385 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 311402008386 putative metal binding site [ion binding]; other site 311402008387 ribonuclease PH; Reviewed; Region: rph; PRK00173 311402008388 Ribonuclease PH; Region: RNase_PH_bact; cd11362 311402008389 hexamer interface [polypeptide binding]; other site 311402008390 active site 311402008391 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 311402008392 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 311402008393 heat shock protein GrpE; Provisional; Region: PRK14141 311402008394 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 311402008395 dimer interface [polypeptide binding]; other site 311402008396 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 311402008397 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 311402008398 active site 311402008399 phosphorylation site [posttranslational modification] 311402008400 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 311402008401 30S subunit binding site; other site 311402008402 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 311402008403 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 311402008404 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 311402008405 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 311402008406 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 311402008407 Walker A/P-loop; other site 311402008408 ATP binding site [chemical binding]; other site 311402008409 Q-loop/lid; other site 311402008410 ABC transporter signature motif; other site 311402008411 Walker B; other site 311402008412 D-loop; other site 311402008413 H-loop/switch region; other site 311402008414 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 311402008415 OstA-like protein; Region: OstA; pfam03968 311402008416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 311402008417 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 311402008418 IHF dimer interface [polypeptide binding]; other site 311402008419 IHF - DNA interface [nucleotide binding]; other site 311402008420 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 311402008421 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 311402008422 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 311402008423 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 311402008424 lipoprotein signal peptidase; Provisional; Region: PRK14795 311402008425 lipoprotein signal peptidase; Provisional; Region: PRK14787 311402008426 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402008427 dimer interface [polypeptide binding]; other site 311402008428 phosphorylation site [posttranslational modification] 311402008429 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402008430 ATP binding site [chemical binding]; other site 311402008431 Mg2+ binding site [ion binding]; other site 311402008432 G-X-G motif; other site 311402008433 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402008434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402008435 active site 311402008436 phosphorylation site [posttranslational modification] 311402008437 intermolecular recognition site; other site 311402008438 dimerization interface [polypeptide binding]; other site 311402008439 Putative hemolysin [General function prediction only]; Region: COG3176 311402008440 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402008441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402008442 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 311402008443 dimerization interface [polypeptide binding]; other site 311402008444 substrate binding pocket [chemical binding]; other site 311402008445 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 311402008446 MutS domain I; Region: MutS_I; pfam01624 311402008447 MutS domain II; Region: MutS_II; pfam05188 311402008448 MutS domain III; Region: MutS_III; pfam05192 311402008449 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 311402008450 Walker A/P-loop; other site 311402008451 ATP binding site [chemical binding]; other site 311402008452 Q-loop/lid; other site 311402008453 ABC transporter signature motif; other site 311402008454 Walker B; other site 311402008455 D-loop; other site 311402008456 H-loop/switch region; other site 311402008457 PII uridylyl-transferase; Provisional; Region: PRK05092 311402008458 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 311402008459 metal binding triad; other site 311402008460 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 311402008461 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311402008462 Zn2+ binding site [ion binding]; other site 311402008463 Mg2+ binding site [ion binding]; other site 311402008464 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 311402008465 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 311402008466 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 311402008467 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 311402008468 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402008469 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 311402008470 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 311402008471 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 311402008472 active site 311402008473 HIGH motif; other site 311402008474 dimer interface [polypeptide binding]; other site 311402008475 KMSKS motif; other site 311402008476 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 311402008477 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 311402008478 Ligand Binding Site [chemical binding]; other site 311402008479 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 311402008480 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 311402008481 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 311402008482 Glycoprotease family; Region: Peptidase_M22; pfam00814 311402008483 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 311402008484 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402008485 Coenzyme A binding pocket [chemical binding]; other site 311402008486 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 311402008487 metal binding site 2 [ion binding]; metal-binding site 311402008488 putative DNA binding helix; other site 311402008489 metal binding site 1 [ion binding]; metal-binding site 311402008490 dimer interface [polypeptide binding]; other site 311402008491 structural Zn2+ binding site [ion binding]; other site 311402008492 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 311402008493 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 311402008494 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 311402008495 putative acyl-acceptor binding pocket; other site 311402008496 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 311402008497 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 311402008498 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402008499 FeS/SAM binding site; other site 311402008500 TRAM domain; Region: TRAM; pfam01938 311402008501 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 311402008502 PhoH-like protein; Region: PhoH; pfam02562 311402008503 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 311402008504 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 311402008505 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 311402008506 Transporter associated domain; Region: CorC_HlyC; smart01091 311402008507 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 311402008508 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 311402008509 putative active site [active] 311402008510 catalytic triad [active] 311402008511 putative dimer interface [polypeptide binding]; other site 311402008512 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402008513 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402008514 non-specific DNA binding site [nucleotide binding]; other site 311402008515 salt bridge; other site 311402008516 sequence-specific DNA binding site [nucleotide binding]; other site 311402008517 S-adenosylmethionine synthetase; Validated; Region: PRK05250 311402008518 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 311402008519 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 311402008520 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 311402008521 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 311402008522 Uncharacterized small protein [Function unknown]; Region: COG5568 311402008523 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 311402008524 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 311402008525 putative dimer interface [polypeptide binding]; other site 311402008526 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 311402008527 active site 311402008528 tetramer interface [polypeptide binding]; other site 311402008529 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 311402008530 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 311402008531 motif II; other site 311402008532 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 311402008533 Ca2+ binding site [ion binding]; other site 311402008534 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402008535 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402008536 dimerization interface [polypeptide binding]; other site 311402008537 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402008538 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402008539 dimer interface [polypeptide binding]; other site 311402008540 putative CheW interface [polypeptide binding]; other site 311402008541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402008542 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 311402008543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402008544 ATP binding site [chemical binding]; other site 311402008545 Mg2+ binding site [ion binding]; other site 311402008546 G-X-G motif; other site 311402008547 ribonuclease P; Reviewed; Region: rnpA; PRK01313 311402008548 membrane protein insertase; Provisional; Region: PRK01318 311402008549 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 311402008550 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 311402008551 G1 box; other site 311402008552 GTP/Mg2+ binding site [chemical binding]; other site 311402008553 Switch I region; other site 311402008554 G2 box; other site 311402008555 G3 box; other site 311402008556 Switch II region; other site 311402008557 G4 box; other site 311402008558 G5 box; other site 311402008559 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 311402008560 Fasciclin domain; Region: Fasciclin; pfam02469 311402008561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 311402008562 Anti-sigma-K factor rskA; Region: RskA; pfam10099 311402008563 RNA polymerase sigma factor; Provisional; Region: PRK12514 311402008564 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402008565 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402008566 DNA binding residues [nucleotide binding] 311402008567 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 311402008568 homohexameric interface [polypeptide binding]; other site 311402008569 feedback inhibition sensing region; other site 311402008570 carbamate kinase; Reviewed; Region: PRK12686 311402008571 nucleotide binding site [chemical binding]; other site 311402008572 N-acetyl-L-glutamate binding site [chemical binding]; other site 311402008573 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402008574 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 311402008575 substrate binding site [chemical binding]; other site 311402008576 dimer interface [polypeptide binding]; other site 311402008577 ATP binding site [chemical binding]; other site 311402008578 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 311402008579 RmuC family; Region: RmuC; pfam02646 311402008580 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 311402008581 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 311402008582 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 311402008583 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 311402008584 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 311402008585 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 311402008586 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 311402008587 trimer interface [polypeptide binding]; other site 311402008588 active site 311402008589 substrate binding site [chemical binding]; other site 311402008590 CoA binding site [chemical binding]; other site 311402008591 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 311402008592 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 311402008593 metal binding site [ion binding]; metal-binding site 311402008594 dimer interface [polypeptide binding]; other site 311402008595 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 311402008596 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 311402008597 catalytic residues [active] 311402008598 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 311402008599 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 311402008600 MOFRL family; Region: MOFRL; pfam05161 311402008601 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 311402008602 dimerization interface [polypeptide binding]; other site 311402008603 domain crossover interface; other site 311402008604 redox-dependent activation switch; other site 311402008605 ornithine carbamoyltransferase; Provisional; Region: PRK00779 311402008606 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 311402008607 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 311402008608 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 311402008609 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402008610 inhibitor-cofactor binding pocket; inhibition site 311402008611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402008612 catalytic residue [active] 311402008613 GcrA cell cycle regulator; Region: GcrA; cl11564 311402008614 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 311402008615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402008616 active site 311402008617 phosphorylation site [posttranslational modification] 311402008618 intermolecular recognition site; other site 311402008619 dimerization interface [polypeptide binding]; other site 311402008620 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402008621 DNA binding site [nucleotide binding] 311402008622 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 311402008623 PhoU domain; Region: PhoU; pfam01895 311402008624 PhoU domain; Region: PhoU; pfam01895 311402008625 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 311402008626 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 311402008627 Walker A/P-loop; other site 311402008628 ATP binding site [chemical binding]; other site 311402008629 Q-loop/lid; other site 311402008630 ABC transporter signature motif; other site 311402008631 Walker B; other site 311402008632 D-loop; other site 311402008633 H-loop/switch region; other site 311402008634 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 311402008635 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 311402008636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402008637 dimer interface [polypeptide binding]; other site 311402008638 conserved gate region; other site 311402008639 putative PBP binding loops; other site 311402008640 ABC-ATPase subunit interface; other site 311402008641 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 311402008642 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 311402008643 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402008644 dimer interface [polypeptide binding]; other site 311402008645 conserved gate region; other site 311402008646 putative PBP binding loops; other site 311402008647 ABC-ATPase subunit interface; other site 311402008648 PBP superfamily domain; Region: PBP_like_2; pfam12849 311402008649 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 311402008650 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402008651 dimer interface [polypeptide binding]; other site 311402008652 phosphorylation site [posttranslational modification] 311402008653 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402008654 ATP binding site [chemical binding]; other site 311402008655 Mg2+ binding site [ion binding]; other site 311402008656 G-X-G motif; other site 311402008657 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 311402008658 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 311402008659 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 311402008660 FMN binding site [chemical binding]; other site 311402008661 substrate binding site [chemical binding]; other site 311402008662 putative catalytic residue [active] 311402008663 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 311402008664 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 311402008665 Walker A/P-loop; other site 311402008666 ATP binding site [chemical binding]; other site 311402008667 Q-loop/lid; other site 311402008668 ABC transporter signature motif; other site 311402008669 Walker B; other site 311402008670 D-loop; other site 311402008671 H-loop/switch region; other site 311402008672 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 311402008673 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402008674 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402008675 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 311402008676 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 311402008677 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402008678 DNA-binding site [nucleotide binding]; DNA binding site 311402008679 UTRA domain; Region: UTRA; pfam07702 311402008680 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 311402008681 active sites [active] 311402008682 tetramer interface [polypeptide binding]; other site 311402008683 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 311402008684 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 311402008685 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402008686 catalytic residue [active] 311402008687 DctM-like transporters; Region: DctM; pfam06808 311402008688 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 311402008689 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 311402008690 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 311402008691 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 311402008692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402008693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402008694 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402008695 dimerization interface [polypeptide binding]; other site 311402008696 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402008697 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402008698 putative substrate translocation pore; other site 311402008699 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 311402008700 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 311402008701 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 311402008702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 311402008703 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 311402008704 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 311402008705 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402008706 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 311402008707 ligand binding site [chemical binding]; other site 311402008708 flexible hinge region; other site 311402008709 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 311402008710 putative switch regulator; other site 311402008711 non-specific DNA interactions [nucleotide binding]; other site 311402008712 DNA binding site [nucleotide binding] 311402008713 sequence specific DNA binding site [nucleotide binding]; other site 311402008714 putative cAMP binding site [chemical binding]; other site 311402008715 Response regulator receiver domain; Region: Response_reg; pfam00072 311402008716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402008717 active site 311402008718 phosphorylation site [posttranslational modification] 311402008719 intermolecular recognition site; other site 311402008720 dimerization interface [polypeptide binding]; other site 311402008721 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 311402008722 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402008723 dimer interface [polypeptide binding]; other site 311402008724 phosphorylation site [posttranslational modification] 311402008725 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402008726 ATP binding site [chemical binding]; other site 311402008727 Mg2+ binding site [ion binding]; other site 311402008728 G-X-G motif; other site 311402008729 Response regulator receiver domain; Region: Response_reg; pfam00072 311402008730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402008731 active site 311402008732 phosphorylation site [posttranslational modification] 311402008733 intermolecular recognition site; other site 311402008734 dimerization interface [polypeptide binding]; other site 311402008735 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 311402008736 putative binding surface; other site 311402008737 active site 311402008738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402008739 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 311402008740 active site 311402008741 phosphorylation site [posttranslational modification] 311402008742 intermolecular recognition site; other site 311402008743 dimerization interface [polypeptide binding]; other site 311402008744 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311402008745 Zn2+ binding site [ion binding]; other site 311402008746 Mg2+ binding site [ion binding]; other site 311402008747 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 311402008748 active site 311402008749 substrate binding pocket [chemical binding]; other site 311402008750 dimer interface [polypeptide binding]; other site 311402008751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402008752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402008753 metal binding site [ion binding]; metal-binding site 311402008754 active site 311402008755 I-site; other site 311402008756 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402008757 active site 311402008758 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402008759 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 311402008760 putative substrate binding site [chemical binding]; other site 311402008761 putative ATP binding site [chemical binding]; other site 311402008762 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402008763 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 311402008764 active site 311402008765 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 311402008766 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 311402008767 active site 311402008768 dimer interface [polypeptide binding]; other site 311402008769 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 311402008770 dimer interface [polypeptide binding]; other site 311402008771 active site 311402008772 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 311402008773 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 311402008774 acyl-activating enzyme (AAE) consensus motif; other site 311402008775 putative AMP binding site [chemical binding]; other site 311402008776 putative active site [active] 311402008777 putative CoA binding site [chemical binding]; other site 311402008778 BON domain; Region: BON; pfam04972 311402008779 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 311402008780 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 311402008781 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 311402008782 active site 311402008783 catalytic site [active] 311402008784 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 311402008785 classical (c) SDRs; Region: SDR_c; cd05233 311402008786 NAD(P) binding site [chemical binding]; other site 311402008787 active site 311402008788 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402008789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 311402008790 active site 311402008791 phosphorylation site [posttranslational modification] 311402008792 intermolecular recognition site; other site 311402008793 dimerization interface [polypeptide binding]; other site 311402008794 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 311402008795 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 311402008796 dimerization interface 3.5A [polypeptide binding]; other site 311402008797 active site 311402008798 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 311402008799 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 311402008800 putative active site [active] 311402008801 substrate binding site [chemical binding]; other site 311402008802 putative cosubstrate binding site; other site 311402008803 catalytic site [active] 311402008804 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 311402008805 substrate binding site [chemical binding]; other site 311402008806 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 311402008807 active site 311402008808 catalytic residues [active] 311402008809 metal binding site [ion binding]; metal-binding site 311402008810 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 311402008811 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 311402008812 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 311402008813 homodimer interface [polypeptide binding]; other site 311402008814 substrate-cofactor binding pocket; other site 311402008815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402008816 catalytic residue [active] 311402008817 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 311402008818 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 311402008819 trimer interface [polypeptide binding]; other site 311402008820 active site 311402008821 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 311402008822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402008823 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402008824 dimerization interface [polypeptide binding]; other site 311402008825 putative DNA binding site [nucleotide binding]; other site 311402008826 putative Zn2+ binding site [ion binding]; other site 311402008827 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402008828 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 311402008829 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 311402008830 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 311402008831 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 311402008832 catalytic residues [active] 311402008833 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 311402008834 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 311402008835 putative hydrolase; Provisional; Region: PRK11460 311402008836 nucleophilic elbow; other site 311402008837 catalytic triad; other site 311402008838 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 311402008839 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 311402008840 putative trimer interface [polypeptide binding]; other site 311402008841 putative CoA binding site [chemical binding]; other site 311402008842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402008843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402008844 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402008845 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402008846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402008847 LysR substrate binding domain; Region: LysR_substrate; pfam03466 311402008848 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 311402008849 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 311402008850 dimer interface [polypeptide binding]; other site 311402008851 N-terminal domain interface [polypeptide binding]; other site 311402008852 substrate binding pocket (H-site) [chemical binding]; other site 311402008853 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402008854 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402008855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 311402008856 Integrase core domain; Region: rve; pfam00665 311402008857 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 311402008858 inhibitor binding site; inhibition site 311402008859 catalytic motif [active] 311402008860 Catalytic residue [active] 311402008861 Active site flap [active] 311402008862 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 311402008863 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402008864 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402008865 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 311402008866 putative active site [active] 311402008867 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 311402008868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402008869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402008870 Walker A/P-loop; other site 311402008871 ATP binding site [chemical binding]; other site 311402008872 Q-loop/lid; other site 311402008873 ABC transporter signature motif; other site 311402008874 Walker B; other site 311402008875 D-loop; other site 311402008876 H-loop/switch region; other site 311402008877 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 311402008878 sulfotransferase; Region: PLN02164 311402008879 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 311402008880 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 311402008881 DXD motif; other site 311402008882 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402008883 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402008884 substrate binding pocket [chemical binding]; other site 311402008885 membrane-bound complex binding site; other site 311402008886 hinge residues; other site 311402008887 tellurite resistance protein terB; Region: terB; cd07176 311402008888 putative metal binding site [ion binding]; other site 311402008889 Predicted transcriptional regulator [Transcription]; Region: COG2932 311402008890 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 311402008891 Catalytic site [active] 311402008892 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311402008893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402008894 active site 311402008895 phosphorylation site [posttranslational modification] 311402008896 intermolecular recognition site; other site 311402008897 dimerization interface [polypeptide binding]; other site 311402008898 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402008899 DNA binding residues [nucleotide binding] 311402008900 dimerization interface [polypeptide binding]; other site 311402008901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 311402008902 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 311402008903 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 311402008904 quinone interaction residues [chemical binding]; other site 311402008905 active site 311402008906 catalytic residues [active] 311402008907 FMN binding site [chemical binding]; other site 311402008908 substrate binding site [chemical binding]; other site 311402008909 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 311402008910 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 311402008911 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 311402008912 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 311402008913 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 311402008914 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402008915 S-adenosylmethionine binding site [chemical binding]; other site 311402008916 Uncharacterized conserved protein [Function unknown]; Region: COG1284 311402008917 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 311402008918 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 311402008919 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311402008920 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 311402008921 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 311402008922 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 311402008923 substrate binding site [chemical binding]; other site 311402008924 oxyanion hole (OAH) forming residues; other site 311402008925 trimer interface [polypeptide binding]; other site 311402008926 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 311402008927 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 311402008928 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 311402008929 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 311402008930 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 311402008931 dimer interface [polypeptide binding]; other site 311402008932 active site 311402008933 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 311402008934 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 311402008935 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 311402008936 FAD binding site [chemical binding]; other site 311402008937 substrate binding site [chemical binding]; other site 311402008938 catalytic residues [active] 311402008939 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 311402008940 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 311402008941 Sel1-like repeats; Region: SEL1; smart00671 311402008942 Sel1-like repeats; Region: SEL1; smart00671 311402008943 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 311402008944 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402008945 Predicted permeases [General function prediction only]; Region: COG0730 311402008946 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 311402008947 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 311402008948 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 311402008949 dimer interface [polypeptide binding]; other site 311402008950 active site 311402008951 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 311402008952 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 311402008953 Walker A/P-loop; other site 311402008954 ATP binding site [chemical binding]; other site 311402008955 Q-loop/lid; other site 311402008956 ABC transporter signature motif; other site 311402008957 Walker B; other site 311402008958 D-loop; other site 311402008959 H-loop/switch region; other site 311402008960 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 311402008961 FtsX-like permease family; Region: FtsX; pfam02687 311402008962 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 311402008963 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 311402008964 catalytic core [active] 311402008965 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 311402008966 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 311402008967 PAS fold; Region: PAS_4; pfam08448 311402008968 PAS domain; Region: PAS; smart00091 311402008969 PAS fold; Region: PAS_7; pfam12860 311402008970 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402008971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402008972 metal binding site [ion binding]; metal-binding site 311402008973 active site 311402008974 I-site; other site 311402008975 Uncharacterized conserved protein [Function unknown]; Region: COG1284 311402008976 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 311402008977 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402008978 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402008979 substrate binding pocket [chemical binding]; other site 311402008980 membrane-bound complex binding site; other site 311402008981 hinge residues; other site 311402008982 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 311402008983 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 311402008984 ATP binding site [chemical binding]; other site 311402008985 putative Mg++ binding site [ion binding]; other site 311402008986 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402008987 nucleotide binding region [chemical binding]; other site 311402008988 ATP-binding site [chemical binding]; other site 311402008989 DEAD/H associated; Region: DEAD_assoc; pfam08494 311402008990 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402008991 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 311402008992 putative active site [active] 311402008993 putative metal binding site [ion binding]; other site 311402008994 Catalytic domain of Protein Kinases; Region: PKc; cd00180 311402008995 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 311402008996 active site 311402008997 ATP binding site [chemical binding]; other site 311402008998 substrate binding site [chemical binding]; other site 311402008999 activation loop (A-loop); other site 311402009000 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 311402009001 Ligand Binding Site [chemical binding]; other site 311402009002 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402009003 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 311402009004 active site 311402009005 metal binding site [ion binding]; metal-binding site 311402009006 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 311402009007 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 311402009008 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 311402009009 Na binding site [ion binding]; other site 311402009010 PAS fold; Region: PAS_7; pfam12860 311402009011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402009012 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402009013 dimer interface [polypeptide binding]; other site 311402009014 phosphorylation site [posttranslational modification] 311402009015 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402009016 ATP binding site [chemical binding]; other site 311402009017 Mg2+ binding site [ion binding]; other site 311402009018 G-X-G motif; other site 311402009019 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402009020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402009021 active site 311402009022 phosphorylation site [posttranslational modification] 311402009023 intermolecular recognition site; other site 311402009024 dimerization interface [polypeptide binding]; other site 311402009025 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 311402009026 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 311402009027 aspartate aminotransferase; Provisional; Region: PRK06108 311402009028 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402009029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402009030 homodimer interface [polypeptide binding]; other site 311402009031 catalytic residue [active] 311402009032 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 311402009033 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 311402009034 substrate binding site; other site 311402009035 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 311402009036 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 311402009037 NAD binding site [chemical binding]; other site 311402009038 homotetramer interface [polypeptide binding]; other site 311402009039 homodimer interface [polypeptide binding]; other site 311402009040 substrate binding site [chemical binding]; other site 311402009041 active site 311402009042 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 311402009043 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 311402009044 Methyltransferase domain; Region: Methyltransf_23; pfam13489 311402009045 Methyltransferase domain; Region: Methyltransf_12; pfam08242 311402009046 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 311402009047 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 311402009048 active site 311402009049 Cephalosporin hydroxylase; Region: CmcI; pfam04989 311402009050 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 311402009051 extended (e) SDRs; Region: SDR_e; cd08946 311402009052 NAD(P) binding site [chemical binding]; other site 311402009053 active site 311402009054 substrate binding site [chemical binding]; other site 311402009055 zinc-binding protein; Provisional; Region: PRK01343 311402009056 Maf-like protein; Region: Maf; pfam02545 311402009057 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 311402009058 active site 311402009059 dimer interface [polypeptide binding]; other site 311402009060 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 311402009061 rRNA binding site [nucleotide binding]; other site 311402009062 predicted 30S ribosome binding site; other site 311402009063 Low molecular weight phosphatase family; Region: LMWPc; cl00105 311402009064 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 311402009065 active site 311402009066 hypothetical protein; Provisional; Region: PRK02853 311402009067 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 311402009068 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 311402009069 NAD binding site [chemical binding]; other site 311402009070 dimerization interface [polypeptide binding]; other site 311402009071 product binding site; other site 311402009072 substrate binding site [chemical binding]; other site 311402009073 zinc binding site [ion binding]; other site 311402009074 catalytic residues [active] 311402009075 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 311402009076 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 311402009077 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 311402009078 hinge; other site 311402009079 active site 311402009080 Helix-turn-helix domain; Region: HTH_36; pfam13730 311402009081 Homeodomain-like domain; Region: HTH_23; pfam13384 311402009082 Winged helix-turn helix; Region: HTH_29; pfam13551 311402009083 Homeodomain-like domain; Region: HTH_32; pfam13565 311402009084 DDE superfamily endonuclease; Region: DDE_3; pfam13358 311402009085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 311402009086 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 311402009087 active site 311402009088 SIR2-like domain; Region: SIR2_2; pfam13289 311402009089 Domain of unknown function DUF87; Region: DUF87; pfam01935 311402009090 HerA helicase [Replication, recombination, and repair]; Region: COG0433 311402009091 KTSC domain; Region: KTSC; pfam13619 311402009092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402009093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402009094 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 311402009095 dimer interface [polypeptide binding]; other site 311402009096 hexamer interface [polypeptide binding]; other site 311402009097 active site 2 [active] 311402009098 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402009099 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 311402009100 dimer interface [polypeptide binding]; other site 311402009101 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402009102 active site 311402009103 DNA binding site [nucleotide binding] 311402009104 Int/Topo IB signature motif; other site 311402009105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402009106 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402009107 YCII-related domain; Region: YCII; cl00999 311402009108 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 311402009109 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 311402009110 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402009111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402009112 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402009113 dimerization interface [polypeptide binding]; other site 311402009114 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 311402009115 AAA domain; Region: AAA_14; pfam13173 311402009116 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 311402009117 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311402009118 Walker A motif; other site 311402009119 ATP binding site [chemical binding]; other site 311402009120 Walker B motif; other site 311402009121 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 311402009122 MobA/MobL family; Region: MobA_MobL; pfam03389 311402009123 AAA domain; Region: AAA_30; pfam13604 311402009124 Family description; Region: UvrD_C_2; pfam13538 311402009125 Helix-turn-helix; Region: HTH_3; pfam01381 311402009126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 311402009127 Integrase core domain; Region: rve; pfam00665 311402009128 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 311402009129 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402009130 Walker A motif; other site 311402009131 ATP binding site [chemical binding]; other site 311402009132 Walker B motif; other site 311402009133 arginine finger; other site 311402009134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402009135 Transposase; Region: HTH_Tnp_1; pfam01527 311402009136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402009137 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402009138 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402009139 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 311402009140 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402009141 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 311402009142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402009143 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402009144 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 311402009145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402009146 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 311402009147 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402009148 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 311402009149 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 311402009150 active site 311402009151 catalytic residues [active] 311402009152 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 311402009153 cleavage site 311402009154 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 311402009155 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 311402009156 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 311402009157 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 311402009158 putative active site [active] 311402009159 putative metal binding site [ion binding]; other site 311402009160 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 311402009161 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 311402009162 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402009163 P-loop; other site 311402009164 Magnesium ion binding site [ion binding]; other site 311402009165 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402009166 active site 311402009167 DNA binding site [nucleotide binding] 311402009168 Int/Topo IB signature motif; other site 311402009169 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 311402009170 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 311402009171 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 311402009172 Walker A/P-loop; other site 311402009173 ATP binding site [chemical binding]; other site 311402009174 Q-loop/lid; other site 311402009175 ABC transporter signature motif; other site 311402009176 Walker B; other site 311402009177 D-loop; other site 311402009178 H-loop/switch region; other site 311402009179 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 311402009180 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 311402009181 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402009182 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402009183 ABC transporter; Region: ABC_tran_2; pfam12848 311402009184 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402009185 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 311402009186 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 311402009187 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 311402009188 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 311402009189 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 311402009190 N-terminal plug; other site 311402009191 ligand-binding site [chemical binding]; other site 311402009192 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 311402009193 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 311402009194 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 311402009195 MgtE intracellular N domain; Region: MgtE_N; cl15244 311402009196 FliG C-terminal domain; Region: FliG_C; pfam01706 311402009197 flagellar motor switch protein FliN; Region: fliN; TIGR02480 311402009198 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 311402009199 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 311402009200 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 311402009201 flagellar motor protein MotA; Validated; Region: PRK09110 311402009202 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 311402009203 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 311402009204 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 311402009205 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 311402009206 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311402009207 Walker A motif; other site 311402009208 ATP binding site [chemical binding]; other site 311402009209 Walker B motif; other site 311402009210 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 311402009211 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 311402009212 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 311402009213 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 311402009214 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 311402009215 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 311402009216 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 311402009217 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 311402009218 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 311402009219 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 311402009220 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 311402009221 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 311402009222 Uncharacterized conserved protein [Function unknown]; Region: COG3334 311402009223 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 311402009224 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 311402009225 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 311402009226 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 311402009227 flagellin; Reviewed; Region: PRK12687 311402009228 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 311402009229 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 311402009230 flagellin; Reviewed; Region: PRK12687 311402009231 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 311402009232 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 311402009233 flagellin; Reviewed; Region: PRK12687 311402009234 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 311402009235 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 311402009236 flagellin; Reviewed; Region: PRK12687 311402009237 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 311402009238 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 311402009239 flagellin; Reviewed; Region: PRK12687 311402009240 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 311402009241 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 311402009242 flagellar motor protein MotB; Validated; Region: motB; PRK05996 311402009243 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 311402009244 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 311402009245 ligand binding site [chemical binding]; other site 311402009246 chemotaxis protein; Reviewed; Region: PRK12798 311402009247 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 311402009248 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 311402009249 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402009250 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402009251 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402009252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 311402009253 active site 311402009254 dimerization interface [polypeptide binding]; other site 311402009255 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402009256 DNA binding site [nucleotide binding] 311402009257 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 311402009258 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 311402009259 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 311402009260 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 311402009261 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 311402009262 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 311402009263 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 311402009264 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 311402009265 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 311402009266 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 311402009267 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 311402009268 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 311402009269 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 311402009270 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 311402009271 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 311402009272 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 311402009273 FHIPEP family; Region: FHIPEP; pfam00771 311402009274 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 311402009275 Rod binding protein; Region: Rod-binding; pfam10135 311402009276 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 311402009277 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 311402009278 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 311402009279 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 311402009280 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 311402009281 homodimer interface [polypeptide binding]; other site 311402009282 NADP binding site [chemical binding]; other site 311402009283 substrate binding site [chemical binding]; other site 311402009284 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402009285 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402009286 DNA binding site [nucleotide binding] 311402009287 domain linker motif; other site 311402009288 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 311402009289 ligand binding site [chemical binding]; other site 311402009290 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402009291 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402009292 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402009293 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402009294 putative PBP binding loops; other site 311402009295 ABC-ATPase subunit interface; other site 311402009296 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402009297 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402009298 dimer interface [polypeptide binding]; other site 311402009299 conserved gate region; other site 311402009300 putative PBP binding loops; other site 311402009301 ABC-ATPase subunit interface; other site 311402009302 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 311402009303 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 311402009304 active site 311402009305 catalytic site [active] 311402009306 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 311402009307 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402009308 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402009309 Walker A/P-loop; other site 311402009310 ATP binding site [chemical binding]; other site 311402009311 Q-loop/lid; other site 311402009312 ABC transporter signature motif; other site 311402009313 Walker B; other site 311402009314 D-loop; other site 311402009315 H-loop/switch region; other site 311402009316 TOBE domain; Region: TOBE_2; pfam08402 311402009317 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 311402009318 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 311402009319 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402009320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402009321 dimer interface [polypeptide binding]; other site 311402009322 putative CheW interface [polypeptide binding]; other site 311402009323 6-phosphogluconate dehydratase; Region: edd; TIGR01196 311402009324 phosphogluconate dehydratase; Validated; Region: PRK09054 311402009325 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 311402009326 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 311402009327 putative active site [active] 311402009328 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 311402009329 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 311402009330 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 311402009331 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 311402009332 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402009333 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 311402009334 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 311402009335 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 311402009336 HI0933-like protein; Region: HI0933_like; pfam03486 311402009337 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402009338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402009339 LysR substrate binding domain; Region: LysR_substrate; pfam03466 311402009340 dimerization interface [polypeptide binding]; other site 311402009341 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402009342 dimerization interface [polypeptide binding]; other site 311402009343 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402009344 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402009345 dimer interface [polypeptide binding]; other site 311402009346 putative CheW interface [polypeptide binding]; other site 311402009347 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402009348 motif II; other site 311402009349 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402009350 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402009351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402009352 Walker A/P-loop; other site 311402009353 ATP binding site [chemical binding]; other site 311402009354 Q-loop/lid; other site 311402009355 ABC transporter signature motif; other site 311402009356 Walker B; other site 311402009357 D-loop; other site 311402009358 H-loop/switch region; other site 311402009359 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402009360 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402009361 putative substrate translocation pore; other site 311402009362 isocitrate lyase; Provisional; Region: PRK15063 311402009363 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 311402009364 tetramer interface [polypeptide binding]; other site 311402009365 active site 311402009366 Mg2+/Mn2+ binding site [ion binding]; other site 311402009367 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402009368 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402009369 non-specific DNA binding site [nucleotide binding]; other site 311402009370 salt bridge; other site 311402009371 sequence-specific DNA binding site [nucleotide binding]; other site 311402009372 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 311402009373 Domain of unknown function (DUF955); Region: DUF955; pfam06114 311402009374 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 311402009375 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 311402009376 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402009377 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402009378 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 311402009379 Walker A/P-loop; other site 311402009380 ATP binding site [chemical binding]; other site 311402009381 Q-loop/lid; other site 311402009382 ABC transporter signature motif; other site 311402009383 Walker B; other site 311402009384 D-loop; other site 311402009385 H-loop/switch region; other site 311402009386 TOBE domain; Region: TOBE_2; pfam08402 311402009387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402009388 dimer interface [polypeptide binding]; other site 311402009389 conserved gate region; other site 311402009390 putative PBP binding loops; other site 311402009391 ABC-ATPase subunit interface; other site 311402009392 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402009393 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402009394 dimer interface [polypeptide binding]; other site 311402009395 conserved gate region; other site 311402009396 putative PBP binding loops; other site 311402009397 ABC-ATPase subunit interface; other site 311402009398 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 311402009399 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 311402009400 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 311402009401 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402009402 putative active site [active] 311402009403 heme pocket [chemical binding]; other site 311402009404 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402009405 dimer interface [polypeptide binding]; other site 311402009406 phosphorylation site [posttranslational modification] 311402009407 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402009408 ATP binding site [chemical binding]; other site 311402009409 Mg2+ binding site [ion binding]; other site 311402009410 G-X-G motif; other site 311402009411 Phasin protein; Region: Phasin_2; cl11491 311402009412 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 311402009413 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 311402009414 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 311402009415 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 311402009416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402009417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402009418 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402009419 dimerization interface [polypeptide binding]; other site 311402009420 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 311402009421 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 311402009422 tetrameric interface [polypeptide binding]; other site 311402009423 NAD binding site [chemical binding]; other site 311402009424 catalytic residues [active] 311402009425 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 311402009426 Rrf2 family protein; Region: rrf2_super; TIGR00738 311402009427 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 311402009428 AAA domain; Region: AAA_33; pfam13671 311402009429 ATP-binding site [chemical binding]; other site 311402009430 Gluconate-6-phosphate binding site [chemical binding]; other site 311402009431 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 311402009432 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402009433 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402009434 hydroxyglutarate oxidase; Provisional; Region: PRK11728 311402009435 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 311402009436 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 311402009437 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402009438 HAMP domain; Region: HAMP; pfam00672 311402009439 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402009440 dimer interface [polypeptide binding]; other site 311402009441 phosphorylation site [posttranslational modification] 311402009442 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402009443 ATP binding site [chemical binding]; other site 311402009444 Mg2+ binding site [ion binding]; other site 311402009445 G-X-G motif; other site 311402009446 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402009447 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402009448 active site 311402009449 phosphorylation site [posttranslational modification] 311402009450 intermolecular recognition site; other site 311402009451 dimerization interface [polypeptide binding]; other site 311402009452 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402009453 DNA binding site [nucleotide binding] 311402009454 malate:quinone oxidoreductase; Validated; Region: PRK05257 311402009455 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 311402009456 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 311402009457 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402009458 putative transposase OrfB; Reviewed; Region: PHA02517 311402009459 Helix-turn-helix domain; Region: HTH_36; pfam13730 311402009460 Phage-related protein [Function unknown]; Region: COG4695; cl01923 311402009461 Phage portal protein; Region: Phage_portal; pfam04860 311402009462 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 311402009463 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 311402009464 Phage capsid family; Region: Phage_capsid; pfam05065 311402009465 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 311402009466 Sulfocyanin (SoxE); Region: SoxE; cl17563 311402009467 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 311402009468 oligomerization interface [polypeptide binding]; other site 311402009469 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 311402009470 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 311402009471 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 311402009472 Phage terminase, small subunit; Region: Terminase_4; pfam05119 311402009473 Phage Terminase; Region: Terminase_1; pfam03354 311402009474 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 311402009475 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cl01497 311402009476 DNA binding site [nucleotide binding] 311402009477 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 311402009478 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 311402009479 active site 311402009480 Int/Topo IB signature motif; other site 311402009481 catalytic residues [active] 311402009482 DNA binding site [nucleotide binding] 311402009483 exopolyphosphatase; Region: exo_poly_only; TIGR03706 311402009484 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402009485 nucleotide binding site [chemical binding]; other site 311402009486 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 311402009487 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 311402009488 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402009489 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 311402009490 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402009491 metal binding site [ion binding]; metal-binding site 311402009492 active site 311402009493 I-site; other site 311402009494 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402009495 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402009496 putative active site [active] 311402009497 heme pocket [chemical binding]; other site 311402009498 Response regulator receiver domain; Region: Response_reg; pfam00072 311402009499 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402009500 active site 311402009501 phosphorylation site [posttranslational modification] 311402009502 intermolecular recognition site; other site 311402009503 dimerization interface [polypeptide binding]; other site 311402009504 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 311402009505 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402009506 ATP binding site [chemical binding]; other site 311402009507 Mg2+ binding site [ion binding]; other site 311402009508 G-X-G motif; other site 311402009509 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 311402009510 ATP binding site [chemical binding]; other site 311402009511 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 311402009512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 311402009513 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 311402009514 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 311402009515 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 311402009516 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402009517 motif II; other site 311402009518 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 311402009519 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 311402009520 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402009521 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 311402009522 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 311402009523 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 311402009524 active site 311402009525 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 311402009526 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 311402009527 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 311402009528 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 311402009529 TrkA-N domain; Region: TrkA_N; pfam02254 311402009530 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 311402009531 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 311402009532 nucleophile elbow; other site 311402009533 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 311402009534 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402009535 S-adenosylmethionine binding site [chemical binding]; other site 311402009536 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 311402009537 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 311402009538 RNA binding surface [nucleotide binding]; other site 311402009539 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 311402009540 active site 311402009541 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 311402009542 nucleoside/Zn binding site; other site 311402009543 dimer interface [polypeptide binding]; other site 311402009544 catalytic motif [active] 311402009545 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 311402009546 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402009547 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402009548 putative substrate translocation pore; other site 311402009549 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 311402009550 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402009551 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402009552 DNA binding residues [nucleotide binding] 311402009553 dimerization interface [polypeptide binding]; other site 311402009554 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 311402009555 NMT1-like family; Region: NMT1_2; pfam13379 311402009556 Domain of unknown function DUF59; Region: DUF59; pfam01883 311402009557 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 311402009558 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 311402009559 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 311402009560 oligomer interface [polypeptide binding]; other site 311402009561 Cl binding site [ion binding]; other site 311402009562 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 311402009563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 311402009564 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 311402009565 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 311402009566 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 311402009567 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 311402009568 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 311402009569 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 311402009570 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 311402009571 RNA/DNA hybrid binding site [nucleotide binding]; other site 311402009572 active site 311402009573 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 311402009574 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402009575 FeS/SAM binding site; other site 311402009576 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 311402009577 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 311402009578 active site 311402009579 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 311402009580 MPT binding site; other site 311402009581 trimer interface [polypeptide binding]; other site 311402009582 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 311402009583 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 311402009584 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402009585 binding surface 311402009586 TPR motif; other site 311402009587 TPR repeat; Region: TPR_11; pfam13414 311402009588 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402009589 binding surface 311402009590 TPR repeat; Region: TPR_11; pfam13414 311402009591 TPR motif; other site 311402009592 TPR repeat; Region: TPR_11; pfam13414 311402009593 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 311402009594 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 311402009595 substrate binding pocket [chemical binding]; other site 311402009596 chain length determination region; other site 311402009597 substrate-Mg2+ binding site; other site 311402009598 catalytic residues [active] 311402009599 aspartate-rich region 1; other site 311402009600 active site lid residues [active] 311402009601 aspartate-rich region 2; other site 311402009602 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 311402009603 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 311402009604 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402009605 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 311402009606 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 311402009607 tandem repeat interface [polypeptide binding]; other site 311402009608 oligomer interface [polypeptide binding]; other site 311402009609 active site residues [active] 311402009610 PAS fold; Region: PAS_4; pfam08448 311402009611 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402009612 HWE histidine kinase; Region: HWE_HK; pfam07536 311402009613 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 311402009614 dimer interface [polypeptide binding]; other site 311402009615 motif 1; other site 311402009616 active site 311402009617 motif 2; other site 311402009618 motif 3; other site 311402009619 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 311402009620 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 311402009621 hinge; other site 311402009622 active site 311402009623 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 311402009624 DALR anticodon binding domain; Region: DALR_1; pfam05746 311402009625 Uncharacterized conserved protein [Function unknown]; Region: COG1683 311402009626 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 311402009627 HAMP domain; Region: HAMP; pfam00672 311402009628 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402009629 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402009630 dimer interface [polypeptide binding]; other site 311402009631 putative CheW interface [polypeptide binding]; other site 311402009632 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 311402009633 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 311402009634 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 311402009635 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 311402009636 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 311402009637 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 311402009638 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 311402009639 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 311402009640 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 311402009641 RNA binding site [nucleotide binding]; other site 311402009642 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 311402009643 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 311402009644 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402009645 S-adenosylmethionine binding site [chemical binding]; other site 311402009646 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 311402009647 UbiA prenyltransferase family; Region: UbiA; pfam01040 311402009648 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 311402009649 putative metal binding site [ion binding]; other site 311402009650 putative homodimer interface [polypeptide binding]; other site 311402009651 putative homotetramer interface [polypeptide binding]; other site 311402009652 putative homodimer-homodimer interface [polypeptide binding]; other site 311402009653 putative allosteric switch controlling residues; other site 311402009654 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 311402009655 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 311402009656 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 311402009657 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 311402009658 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 311402009659 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 311402009660 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 311402009661 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 311402009662 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 311402009663 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 311402009664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402009665 dimer interface [polypeptide binding]; other site 311402009666 conserved gate region; other site 311402009667 putative PBP binding loops; other site 311402009668 ABC-ATPase subunit interface; other site 311402009669 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 311402009670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402009671 Walker A/P-loop; other site 311402009672 ATP binding site [chemical binding]; other site 311402009673 Q-loop/lid; other site 311402009674 ABC transporter signature motif; other site 311402009675 Walker B; other site 311402009676 D-loop; other site 311402009677 H-loop/switch region; other site 311402009678 TOBE domain; Region: TOBE; pfam03459 311402009679 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 311402009680 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 311402009681 FAD binding domain; Region: FAD_binding_4; pfam01565 311402009682 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 311402009683 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 311402009684 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402009685 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402009686 metal binding site [ion binding]; metal-binding site 311402009687 active site 311402009688 I-site; other site 311402009689 HAMP domain; Region: HAMP; pfam00672 311402009690 dimerization interface [polypeptide binding]; other site 311402009691 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402009692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402009693 dimer interface [polypeptide binding]; other site 311402009694 putative CheW interface [polypeptide binding]; other site 311402009695 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 311402009696 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 311402009697 [2Fe-2S] cluster binding site [ion binding]; other site 311402009698 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 311402009699 putative alpha subunit interface [polypeptide binding]; other site 311402009700 putative active site [active] 311402009701 putative substrate binding site [chemical binding]; other site 311402009702 Fe binding site [ion binding]; other site 311402009703 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 311402009704 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 311402009705 FAD binding pocket [chemical binding]; other site 311402009706 FAD binding motif [chemical binding]; other site 311402009707 phosphate binding motif [ion binding]; other site 311402009708 beta-alpha-beta structure motif; other site 311402009709 NAD binding pocket [chemical binding]; other site 311402009710 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 311402009711 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402009712 catalytic loop [active] 311402009713 iron binding site [ion binding]; other site 311402009714 BA14K-like protein; Region: BA14K; pfam07886 311402009715 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 311402009716 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 311402009717 Cl binding site [ion binding]; other site 311402009718 oligomer interface [polypeptide binding]; other site 311402009719 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 311402009720 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402009721 active site 311402009722 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 311402009723 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 311402009724 substrate binding site [chemical binding]; other site 311402009725 oxyanion hole (OAH) forming residues; other site 311402009726 trimer interface [polypeptide binding]; other site 311402009727 Cache domain; Region: Cache_1; pfam02743 311402009728 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402009729 dimerization interface [polypeptide binding]; other site 311402009730 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402009731 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402009732 dimer interface [polypeptide binding]; other site 311402009733 putative CheW interface [polypeptide binding]; other site 311402009734 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 311402009735 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402009736 S-adenosylmethionine binding site [chemical binding]; other site 311402009737 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 311402009738 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 311402009739 RNA binding surface [nucleotide binding]; other site 311402009740 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402009741 S-adenosylmethionine binding site [chemical binding]; other site 311402009742 CHASE3 domain; Region: CHASE3; cl05000 311402009743 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402009744 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402009745 dimer interface [polypeptide binding]; other site 311402009746 putative CheW interface [polypeptide binding]; other site 311402009747 CHASE3 domain; Region: CHASE3; pfam05227 311402009748 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402009749 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402009750 dimer interface [polypeptide binding]; other site 311402009751 putative CheW interface [polypeptide binding]; other site 311402009752 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 311402009753 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 311402009754 TPP-binding site; other site 311402009755 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 311402009756 PYR/PP interface [polypeptide binding]; other site 311402009757 dimer interface [polypeptide binding]; other site 311402009758 TPP binding site [chemical binding]; other site 311402009759 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 311402009760 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 311402009761 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 311402009762 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 311402009763 putative active site [active] 311402009764 Zn binding site [ion binding]; other site 311402009765 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 311402009766 active site 2 [active] 311402009767 active site 1 [active] 311402009768 Uncharacterized bacterial proteins with similarity to Aminoglycoside 3'-phosphotransferase (APH) and Choline kinase (ChoK) family members. The APH/ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases; Region: APH_ChoK_like_1; cd05155 311402009769 Phosphotransferase enzyme family; Region: APH; pfam01636 311402009770 putative active site [active] 311402009771 putative substrate binding site [chemical binding]; other site 311402009772 ATP binding site [chemical binding]; other site 311402009773 BioY family; Region: BioY; pfam02632 311402009774 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 311402009775 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 311402009776 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 311402009777 Walker A/P-loop; other site 311402009778 ATP binding site [chemical binding]; other site 311402009779 Q-loop/lid; other site 311402009780 ABC transporter signature motif; other site 311402009781 Walker B; other site 311402009782 D-loop; other site 311402009783 H-loop/switch region; other site 311402009784 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 311402009785 agmatinase; Region: agmatinase; TIGR01230 311402009786 oligomer interface [polypeptide binding]; other site 311402009787 putative active site [active] 311402009788 Mn binding site [ion binding]; other site 311402009789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 311402009790 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 311402009791 Cupin domain; Region: Cupin_2; cl17218 311402009792 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 311402009793 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 311402009794 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 311402009795 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 311402009796 dimerization interface [polypeptide binding]; other site 311402009797 active site 311402009798 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 311402009799 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 311402009800 Tetramer interface [polypeptide binding]; other site 311402009801 active site 311402009802 FMN-binding site [chemical binding]; other site 311402009803 PAS fold; Region: PAS_3; pfam08447 311402009804 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402009805 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402009806 metal binding site [ion binding]; metal-binding site 311402009807 active site 311402009808 I-site; other site 311402009809 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402009810 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 311402009811 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 311402009812 catalytic core [active] 311402009813 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 311402009814 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 311402009815 NAD binding site [chemical binding]; other site 311402009816 homotetramer interface [polypeptide binding]; other site 311402009817 homodimer interface [polypeptide binding]; other site 311402009818 substrate binding site [chemical binding]; other site 311402009819 active site 311402009820 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 311402009821 HSP70 interaction site [polypeptide binding]; other site 311402009822 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 311402009823 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 311402009824 dimer interface [polypeptide binding]; other site 311402009825 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 311402009826 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 311402009827 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 311402009828 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 311402009829 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 311402009830 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 311402009831 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 311402009832 putative active site [active] 311402009833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402009834 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402009835 putative substrate translocation pore; other site 311402009836 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 311402009837 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 311402009838 DNA binding residues [nucleotide binding] 311402009839 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 311402009840 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 311402009841 Sporulation related domain; Region: SPOR; pfam05036 311402009842 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria; Region: NTP-PPase_u1; cd11538 311402009843 metal binding site [ion binding]; metal-binding site 311402009844 Acid Phosphatase; Region: Acid_PPase; cl17256 311402009845 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 311402009846 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402009847 motif II; other site 311402009848 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 311402009849 dimer interface [polypeptide binding]; other site 311402009850 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402009851 ligand binding site [chemical binding]; other site 311402009852 protease TldD; Provisional; Region: tldD; PRK10735 311402009853 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 311402009854 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 311402009855 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 311402009856 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 311402009857 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 311402009858 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 311402009859 Subunit I/III interface [polypeptide binding]; other site 311402009860 D-pathway; other site 311402009861 Subunit I/VIIc interface [polypeptide binding]; other site 311402009862 Subunit I/IV interface [polypeptide binding]; other site 311402009863 Subunit I/II interface [polypeptide binding]; other site 311402009864 Low-spin heme (heme a) binding site [chemical binding]; other site 311402009865 Subunit I/VIIa interface [polypeptide binding]; other site 311402009866 Subunit I/VIa interface [polypeptide binding]; other site 311402009867 Dimer interface; other site 311402009868 Putative water exit pathway; other site 311402009869 Binuclear center (heme a3/CuB) [ion binding]; other site 311402009870 K-pathway; other site 311402009871 Subunit I/Vb interface [polypeptide binding]; other site 311402009872 Putative proton exit pathway; other site 311402009873 Subunit I/VIb interface; other site 311402009874 Subunit I/VIc interface [polypeptide binding]; other site 311402009875 Electron transfer pathway; other site 311402009876 Subunit I/VIIIb interface [polypeptide binding]; other site 311402009877 Subunit I/VIIb interface [polypeptide binding]; other site 311402009878 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 311402009879 UbiA prenyltransferase family; Region: UbiA; pfam01040 311402009880 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 311402009881 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 311402009882 Subunit III/VIIa interface [polypeptide binding]; other site 311402009883 Phospholipid binding site [chemical binding]; other site 311402009884 Subunit I/III interface [polypeptide binding]; other site 311402009885 Subunit III/VIb interface [polypeptide binding]; other site 311402009886 Subunit III/VIa interface; other site 311402009887 Subunit III/Vb interface [polypeptide binding]; other site 311402009888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 311402009889 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 311402009890 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 311402009891 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 311402009892 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 311402009893 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 311402009894 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 311402009895 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 311402009896 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402009897 aspartate aminotransferase; Provisional; Region: PRK05764 311402009898 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402009899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402009900 homodimer interface [polypeptide binding]; other site 311402009901 catalytic residue [active] 311402009902 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 311402009903 putative active site pocket [active] 311402009904 dimerization interface [polypeptide binding]; other site 311402009905 putative catalytic residue [active] 311402009906 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 311402009907 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 311402009908 putative active site [active] 311402009909 putative substrate binding site [chemical binding]; other site 311402009910 ATP binding site [chemical binding]; other site 311402009911 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 311402009912 RNA/DNA hybrid binding site [nucleotide binding]; other site 311402009913 active site 311402009914 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 311402009915 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 311402009916 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 311402009917 metal binding site [ion binding]; metal-binding site 311402009918 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 311402009919 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402009920 ABC-ATPase subunit interface; other site 311402009921 dimer interface [polypeptide binding]; other site 311402009922 putative PBP binding regions; other site 311402009923 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 311402009924 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 311402009925 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 311402009926 catalytic triad [active] 311402009927 dimer interface [polypeptide binding]; other site 311402009928 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 311402009929 hypothetical protein; Validated; Region: PRK00228 311402009930 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 311402009931 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402009932 dimerization interface [polypeptide binding]; other site 311402009933 putative DNA binding site [nucleotide binding]; other site 311402009934 putative Zn2+ binding site [ion binding]; other site 311402009935 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 311402009936 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 311402009937 PAS fold; Region: PAS_3; pfam08447 311402009938 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402009939 putative active site [active] 311402009940 heme pocket [chemical binding]; other site 311402009941 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402009942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402009943 metal binding site [ion binding]; metal-binding site 311402009944 active site 311402009945 I-site; other site 311402009946 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402009947 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 311402009948 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311402009949 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 311402009950 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 311402009951 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 311402009952 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 311402009953 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 311402009954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402009955 catalytic residue [active] 311402009956 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 311402009957 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 311402009958 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 311402009959 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402009960 motif II; other site 311402009961 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402009962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402009963 DNA-binding site [nucleotide binding]; DNA binding site 311402009964 FCD domain; Region: FCD; pfam07729 311402009965 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 311402009966 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 311402009967 DNA methylase; Region: N6_N4_Mtase; pfam01555 311402009968 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402009969 TPR repeat; Region: TPR_11; pfam13414 311402009970 binding surface 311402009971 TPR motif; other site 311402009972 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402009973 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 311402009974 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402009975 TPR motif; other site 311402009976 binding surface 311402009977 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402009978 Uncharacterized conserved protein [Function unknown]; Region: COG1359 311402009979 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 311402009980 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 311402009981 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 311402009982 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 311402009983 minor groove reading motif; other site 311402009984 helix-hairpin-helix signature motif; other site 311402009985 substrate binding pocket [chemical binding]; other site 311402009986 active site 311402009987 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 311402009988 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 311402009989 DNA binding and oxoG recognition site [nucleotide binding] 311402009990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 311402009991 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 311402009992 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 311402009993 catalytic residues [active] 311402009994 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 311402009995 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 311402009996 Walker A/P-loop; other site 311402009997 ATP binding site [chemical binding]; other site 311402009998 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 311402009999 ABC transporter signature motif; other site 311402010000 Walker B; other site 311402010001 D-loop; other site 311402010002 H-loop/switch region; other site 311402010003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 311402010004 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 311402010005 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402010006 putative substrate translocation pore; other site 311402010007 Bacterial SH3 domain; Region: SH3_4; pfam06347 311402010008 Bacterial SH3 domain; Region: SH3_4; pfam06347 311402010009 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 311402010010 pyruvate phosphate dikinase; Provisional; Region: PRK09279 311402010011 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 311402010012 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 311402010013 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 311402010014 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 311402010015 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 311402010016 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402010017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402010018 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402010019 dimerization interface [polypeptide binding]; other site 311402010020 Biofilm formation and stress response factor; Region: BsmA; pfam10014 311402010021 LysE type translocator; Region: LysE; cl00565 311402010022 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 311402010023 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 311402010024 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 311402010025 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 311402010026 E3 interaction surface; other site 311402010027 lipoyl attachment site [posttranslational modification]; other site 311402010028 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402010029 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 311402010030 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402010031 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 311402010032 Walker A/P-loop; other site 311402010033 ATP binding site [chemical binding]; other site 311402010034 Q-loop/lid; other site 311402010035 ABC transporter signature motif; other site 311402010036 Walker B; other site 311402010037 D-loop; other site 311402010038 H-loop/switch region; other site 311402010039 HAMP domain; Region: HAMP; pfam00672 311402010040 dimerization interface [polypeptide binding]; other site 311402010041 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402010042 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402010043 dimer interface [polypeptide binding]; other site 311402010044 putative CheW interface [polypeptide binding]; other site 311402010045 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 311402010046 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 311402010047 Active Sites [active] 311402010048 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 311402010049 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 311402010050 Active Sites [active] 311402010051 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 311402010052 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 311402010053 CysD dimerization site [polypeptide binding]; other site 311402010054 G1 box; other site 311402010055 putative GEF interaction site [polypeptide binding]; other site 311402010056 GTP/Mg2+ binding site [chemical binding]; other site 311402010057 Switch I region; other site 311402010058 G2 box; other site 311402010059 G3 box; other site 311402010060 Switch II region; other site 311402010061 G4 box; other site 311402010062 G5 box; other site 311402010063 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 311402010064 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 311402010065 Predicted amidohydrolase [General function prediction only]; Region: COG0388 311402010066 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 311402010067 active site 311402010068 catalytic triad [active] 311402010069 dimer interface [polypeptide binding]; other site 311402010070 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402010071 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402010072 DNA binding site [nucleotide binding] 311402010073 domain linker motif; other site 311402010074 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 311402010075 putative dimerization interface [polypeptide binding]; other site 311402010076 putative ligand binding site [chemical binding]; other site 311402010077 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 311402010078 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 311402010079 Cupin domain; Region: Cupin_2; cl17218 311402010080 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 311402010081 intracellular protease, PfpI family; Region: PfpI; TIGR01382 311402010082 proposed catalytic triad [active] 311402010083 conserved cys residue [active] 311402010084 Predicted ester cyclase [General function prediction only]; Region: COG5485 311402010085 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 311402010086 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 311402010087 putative Cl- selectivity filter; other site 311402010088 putative pore gating glutamate residue; other site 311402010089 flagellin; Reviewed; Region: PRK12687 311402010090 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 311402010091 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 311402010092 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 311402010093 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 311402010094 putative ion selectivity filter; other site 311402010095 putative pore gating glutamate residue; other site 311402010096 putative H+/Cl- coupling transport residue; other site 311402010097 Uncharacterized conserved protein [Function unknown]; Region: COG2898 311402010098 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 311402010099 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 311402010100 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 311402010101 oligomeric interface; other site 311402010102 putative active site [active] 311402010103 homodimer interface [polypeptide binding]; other site 311402010104 choline dehydrogenase; Validated; Region: PRK02106 311402010105 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 311402010106 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 311402010107 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 311402010108 NAD(P) binding site [chemical binding]; other site 311402010109 catalytic residues [active] 311402010110 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402010111 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 311402010112 putative C-terminal domain interface [polypeptide binding]; other site 311402010113 putative GSH binding site (G-site) [chemical binding]; other site 311402010114 putative dimer interface [polypeptide binding]; other site 311402010115 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 311402010116 putative N-terminal domain interface [polypeptide binding]; other site 311402010117 putative dimer interface [polypeptide binding]; other site 311402010118 putative substrate binding pocket (H-site) [chemical binding]; other site 311402010119 choline-sulfatase; Region: chol_sulfatase; TIGR03417 311402010120 Sulfatase; Region: Sulfatase; cl17466 311402010121 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 311402010122 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 311402010123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402010124 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 311402010125 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402010126 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 311402010127 FOG: CBS domain [General function prediction only]; Region: COG0517 311402010128 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402010129 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402010130 metal binding site [ion binding]; metal-binding site 311402010131 active site 311402010132 I-site; other site 311402010133 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 311402010134 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 311402010135 NAD(P) binding site [chemical binding]; other site 311402010136 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 311402010137 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402010138 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 311402010139 HAMP domain; Region: HAMP; pfam00672 311402010140 dimerization interface [polypeptide binding]; other site 311402010141 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402010142 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402010143 dimer interface [polypeptide binding]; other site 311402010144 putative CheW interface [polypeptide binding]; other site 311402010145 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402010146 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402010147 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402010148 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402010149 L-asparaginase II; Region: Asparaginase_II; cl01842 311402010150 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 311402010151 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 311402010152 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 311402010153 putative metal dependent hydrolase; Provisional; Region: PRK11598 311402010154 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 311402010155 Sulfatase; Region: Sulfatase; pfam00884 311402010156 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402010157 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402010158 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402010159 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 311402010160 putative C-terminal domain interface [polypeptide binding]; other site 311402010161 putative GSH binding site (G-site) [chemical binding]; other site 311402010162 putative dimer interface [polypeptide binding]; other site 311402010163 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 311402010164 dimer interface [polypeptide binding]; other site 311402010165 N-terminal domain interface [polypeptide binding]; other site 311402010166 putative substrate binding pocket (H-site) [chemical binding]; other site 311402010167 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 311402010168 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 311402010169 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 311402010170 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311402010171 MarR family; Region: MarR_2; pfam12802 311402010172 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 311402010173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402010174 putative substrate translocation pore; other site 311402010175 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 311402010176 dimer interface [polypeptide binding]; other site 311402010177 FMN binding site [chemical binding]; other site 311402010178 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 311402010179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 311402010180 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402010181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 311402010182 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402010183 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311402010184 MarR family; Region: MarR; pfam01047 311402010185 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 311402010186 sugar efflux transporter; Region: 2A0120; TIGR00899 311402010187 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402010188 putative substrate translocation pore; other site 311402010189 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402010190 PAS domain; Region: PAS_9; pfam13426 311402010191 putative active site [active] 311402010192 heme pocket [chemical binding]; other site 311402010193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402010194 Histidine kinase; Region: HisKA_2; pfam07568 311402010195 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402010196 ATP binding site [chemical binding]; other site 311402010197 Mg2+ binding site [ion binding]; other site 311402010198 G-X-G motif; other site 311402010199 Response regulator receiver domain; Region: Response_reg; pfam00072 311402010200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402010201 active site 311402010202 phosphorylation site [posttranslational modification] 311402010203 intermolecular recognition site; other site 311402010204 dimerization interface [polypeptide binding]; other site 311402010205 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 311402010206 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 311402010207 active site 311402010208 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402010209 active site 311402010210 Cache domain; Region: Cache_1; pfam02743 311402010211 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402010212 dimerization interface [polypeptide binding]; other site 311402010213 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402010214 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402010215 dimer interface [polypeptide binding]; other site 311402010216 putative CheW interface [polypeptide binding]; other site 311402010217 Cache domain; Region: Cache_1; pfam02743 311402010218 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402010219 dimerization interface [polypeptide binding]; other site 311402010220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402010221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402010222 dimer interface [polypeptide binding]; other site 311402010223 putative CheW interface [polypeptide binding]; other site 311402010224 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 311402010225 Domain of unknown function DUF87; Region: DUF87; pfam01935 311402010226 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 311402010227 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 311402010228 pyruvate kinase; Provisional; Region: PRK05826 311402010229 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 311402010230 active site 311402010231 domain interfaces; other site 311402010232 Membrane transport protein; Region: Mem_trans; cl09117 311402010233 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402010234 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402010235 dimerization interface [polypeptide binding]; other site 311402010236 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402010237 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402010238 dimer interface [polypeptide binding]; other site 311402010239 putative CheW interface [polypeptide binding]; other site 311402010240 Bacitracin resistance protein BacA; Region: BacA; pfam02673 311402010241 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402010242 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402010243 Walker A/P-loop; other site 311402010244 ATP binding site [chemical binding]; other site 311402010245 Q-loop/lid; other site 311402010246 ABC transporter signature motif; other site 311402010247 Walker B; other site 311402010248 D-loop; other site 311402010249 H-loop/switch region; other site 311402010250 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402010251 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402010252 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402010253 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402010254 TM-ABC transporter signature motif; other site 311402010255 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 311402010256 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 311402010257 putative ligand binding site [chemical binding]; other site 311402010258 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 311402010259 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402010260 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 311402010261 PemK-like protein; Region: PemK; cl00995 311402010262 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 311402010263 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 311402010264 Walker A/P-loop; other site 311402010265 ATP binding site [chemical binding]; other site 311402010266 Q-loop/lid; other site 311402010267 ABC transporter signature motif; other site 311402010268 Walker B; other site 311402010269 D-loop; other site 311402010270 H-loop/switch region; other site 311402010271 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 311402010272 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402010273 ABC-ATPase subunit interface; other site 311402010274 dimer interface [polypeptide binding]; other site 311402010275 putative PBP binding regions; other site 311402010276 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 311402010277 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 311402010278 putative ligand binding residues [chemical binding]; other site 311402010279 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 311402010280 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 311402010281 putative ligand binding residues [chemical binding]; other site 311402010282 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402010283 S-adenosylmethionine binding site [chemical binding]; other site 311402010284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402010285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402010286 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 311402010287 putative effector binding pocket; other site 311402010288 dimerization interface [polypeptide binding]; other site 311402010289 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 311402010290 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402010291 putative substrate translocation pore; other site 311402010292 thioester reductase domain; Region: Thioester-redct; TIGR01746 311402010293 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 311402010294 putative NAD(P) binding site [chemical binding]; other site 311402010295 active site 311402010296 putative substrate binding site [chemical binding]; other site 311402010297 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 311402010298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402010299 Coenzyme A binding pocket [chemical binding]; other site 311402010300 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 311402010301 Predicted transcriptional regulator [Transcription]; Region: COG2944 311402010302 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 311402010303 non-specific DNA binding site [nucleotide binding]; other site 311402010304 salt bridge; other site 311402010305 sequence-specific DNA binding site [nucleotide binding]; other site 311402010306 Cytochrome c; Region: Cytochrom_C; pfam00034 311402010307 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 311402010308 Cytochrome C' Region: Cytochrom_C_2; cl01610 311402010309 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain; Region: MPP_Nbla03831; cd07396 311402010310 active site 311402010311 metal binding site [ion binding]; metal-binding site 311402010312 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402010313 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311402010314 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 311402010315 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 311402010316 Predicted transcriptional regulators [Transcription]; Region: COG1733 311402010317 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 311402010318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402010319 Coenzyme A binding pocket [chemical binding]; other site 311402010320 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 311402010321 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 311402010322 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 311402010323 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 311402010324 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 311402010325 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402010326 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402010327 metal binding site [ion binding]; metal-binding site 311402010328 active site 311402010329 I-site; other site 311402010330 aminotransferase; Provisional; Region: PRK13356 311402010331 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 311402010332 homodimer interface [polypeptide binding]; other site 311402010333 substrate-cofactor binding pocket; other site 311402010334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402010335 catalytic residue [active] 311402010336 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 311402010337 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 311402010338 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 311402010339 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 311402010340 VirK protein; Region: VirK; pfam06903 311402010341 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 311402010342 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 311402010343 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 311402010344 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 311402010345 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 311402010346 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 311402010347 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 311402010348 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 311402010349 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 311402010350 putative metal binding site [ion binding]; other site 311402010351 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 311402010352 active site 311402010353 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 311402010354 Ligand Binding Site [chemical binding]; other site 311402010355 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 311402010356 MAPEG family; Region: MAPEG; pfam01124 311402010357 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 311402010358 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 311402010359 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 311402010360 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402010361 ligand binding site [chemical binding]; other site 311402010362 flexible hinge region; other site 311402010363 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 311402010364 putative switch regulator; other site 311402010365 non-specific DNA interactions [nucleotide binding]; other site 311402010366 DNA binding site [nucleotide binding] 311402010367 sequence specific DNA binding site [nucleotide binding]; other site 311402010368 putative cAMP binding site [chemical binding]; other site 311402010369 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 311402010370 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402010371 Helix-turn-helix domain; Region: HTH_18; pfam12833 311402010372 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402010373 Predicted transcriptional regulator [Transcription]; Region: COG4957 311402010374 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 311402010375 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 311402010376 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 311402010377 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 311402010378 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311402010379 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 311402010380 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 311402010381 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 311402010382 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311402010383 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 311402010384 methionine sulfoxide reductase B; Provisional; Region: PRK00222 311402010385 SelR domain; Region: SelR; pfam01641 311402010386 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 311402010387 DnaA box-binding interface [nucleotide binding]; other site 311402010388 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402010389 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402010390 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402010391 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 311402010392 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 311402010393 Walker A/P-loop; other site 311402010394 ATP binding site [chemical binding]; other site 311402010395 Q-loop/lid; other site 311402010396 ABC transporter signature motif; other site 311402010397 Walker B; other site 311402010398 D-loop; other site 311402010399 H-loop/switch region; other site 311402010400 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 311402010401 FtsX-like permease family; Region: FtsX; pfam02687 311402010402 Predicted acyl esterases [General function prediction only]; Region: COG2936 311402010403 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 311402010404 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402010405 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402010406 Jacalin-like lectin domain of griffithsin and related proteins; Region: griffithsin_like; cd09614 311402010407 sugar binding site [chemical binding]; other site 311402010408 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 311402010409 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 311402010410 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402010411 dimer interface [polypeptide binding]; other site 311402010412 phosphorylation site [posttranslational modification] 311402010413 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402010414 ATP binding site [chemical binding]; other site 311402010415 Mg2+ binding site [ion binding]; other site 311402010416 G-X-G motif; other site 311402010417 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402010418 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402010419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 311402010420 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 311402010421 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402010422 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402010423 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402010424 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402010425 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402010426 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402010427 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402010428 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402010429 Uncharacterized conserved protein [Function unknown]; Region: COG5447 311402010430 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 311402010431 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 311402010432 Predicted integral membrane protein [Function unknown]; Region: COG5436 311402010433 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 311402010434 Transglycosylase; Region: Transgly; pfam00912 311402010435 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 311402010436 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 311402010437 hypothetical protein; Provisional; Region: PRK05170 311402010438 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 311402010439 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 311402010440 DNA binding residues [nucleotide binding] 311402010441 dimer interface [polypeptide binding]; other site 311402010442 copper binding site [ion binding]; other site 311402010443 Uncharacterized conserved protein [Function unknown]; Region: COG5323 311402010444 Terminase-like family; Region: Terminase_6; pfam03237 311402010445 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 311402010446 Phage-related protein [Function unknown]; Region: COG4695 311402010447 Phage portal protein; Region: Phage_portal; pfam04860 311402010448 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 311402010449 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 311402010450 Phage capsid family; Region: Phage_capsid; pfam05065 311402010451 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 311402010452 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 311402010453 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 311402010454 oligomerization interface [polypeptide binding]; other site 311402010455 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 311402010456 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 311402010457 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402010458 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402010459 putative substrate translocation pore; other site 311402010460 Phage major tail protein 2; Region: Phage_tail_2; cl11463 311402010461 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 311402010462 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 311402010463 Phage-related minor tail protein [Function unknown]; Region: COG5281 311402010464 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 311402010465 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 311402010466 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 311402010467 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 311402010468 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 311402010469 NlpC/P60 family; Region: NLPC_P60; cl17555 311402010470 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 311402010471 Putative phage tail protein; Region: Phage-tail_3; pfam13550 311402010472 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402010473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402010474 active site 311402010475 phosphorylation site [posttranslational modification] 311402010476 intermolecular recognition site; other site 311402010477 dimerization interface [polypeptide binding]; other site 311402010478 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402010479 DNA binding site [nucleotide binding] 311402010480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402010481 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402010482 ATP binding site [chemical binding]; other site 311402010483 Mg2+ binding site [ion binding]; other site 311402010484 G-X-G motif; other site 311402010485 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 311402010486 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 311402010487 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 311402010488 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402010489 binding surface 311402010490 TPR motif; other site 311402010491 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 311402010492 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 311402010493 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 311402010494 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 311402010495 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 311402010496 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 311402010497 protein binding site [polypeptide binding]; other site 311402010498 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 311402010499 protein binding site [polypeptide binding]; other site 311402010500 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402010501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402010502 active site 311402010503 phosphorylation site [posttranslational modification] 311402010504 intermolecular recognition site; other site 311402010505 dimerization interface [polypeptide binding]; other site 311402010506 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402010507 DNA binding site [nucleotide binding] 311402010508 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 311402010509 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402010510 dimerization interface [polypeptide binding]; other site 311402010511 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 311402010512 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402010513 ATP binding site [chemical binding]; other site 311402010514 Mg2+ binding site [ion binding]; other site 311402010515 G-X-G motif; other site 311402010516 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 311402010517 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 311402010518 metal binding triad; other site 311402010519 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 311402010520 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 311402010521 metal binding triad; other site 311402010522 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402010523 PAS fold; Region: PAS_3; pfam08447 311402010524 putative active site [active] 311402010525 heme pocket [chemical binding]; other site 311402010526 PAS fold; Region: PAS_7; pfam12860 311402010527 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402010528 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402010529 dimer interface [polypeptide binding]; other site 311402010530 phosphorylation site [posttranslational modification] 311402010531 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402010532 ATP binding site [chemical binding]; other site 311402010533 Mg2+ binding site [ion binding]; other site 311402010534 G-X-G motif; other site 311402010535 aminopeptidase N; Provisional; Region: pepN; PRK14015 311402010536 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 311402010537 active site 311402010538 Zn binding site [ion binding]; other site 311402010539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402010540 putative CheW interface [polypeptide binding]; other site 311402010541 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311402010542 EamA-like transporter family; Region: EamA; cl17759 311402010543 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402010544 putative MFS family transporter protein; Provisional; Region: PRK03633 311402010545 putative substrate translocation pore; other site 311402010546 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 311402010547 Fe-S cluster binding site [ion binding]; other site 311402010548 active site 311402010549 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 311402010550 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 311402010551 nucleotide binding site [chemical binding]; other site 311402010552 putative NEF/HSP70 interaction site [polypeptide binding]; other site 311402010553 SBD interface [polypeptide binding]; other site 311402010554 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 311402010555 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402010556 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402010557 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402010558 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 311402010559 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 311402010560 putative NAD(P) binding site [chemical binding]; other site 311402010561 putative active site [active] 311402010562 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 311402010563 hydroxyglutarate oxidase; Provisional; Region: PRK11728 311402010564 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 311402010565 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 311402010566 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 311402010567 homodimer interface [polypeptide binding]; other site 311402010568 substrate-cofactor binding pocket; other site 311402010569 catalytic residue [active] 311402010570 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 311402010571 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402010572 S-adenosylmethionine binding site [chemical binding]; other site 311402010573 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 311402010574 MgtE intracellular N domain; Region: MgtE_N; pfam03448 311402010575 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 311402010576 Divalent cation transporter; Region: MgtE; pfam01769 311402010577 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 311402010578 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402010579 putative substrate translocation pore; other site 311402010580 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 311402010581 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 311402010582 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 311402010583 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402010584 Walker A/P-loop; other site 311402010585 ATP binding site [chemical binding]; other site 311402010586 Q-loop/lid; other site 311402010587 ABC transporter signature motif; other site 311402010588 Walker B; other site 311402010589 D-loop; other site 311402010590 H-loop/switch region; other site 311402010591 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402010592 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402010593 Walker A/P-loop; other site 311402010594 ATP binding site [chemical binding]; other site 311402010595 Q-loop/lid; other site 311402010596 ABC transporter signature motif; other site 311402010597 Walker B; other site 311402010598 D-loop; other site 311402010599 H-loop/switch region; other site 311402010600 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402010601 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402010602 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402010603 dimer interface [polypeptide binding]; other site 311402010604 conserved gate region; other site 311402010605 putative PBP binding loops; other site 311402010606 ABC-ATPase subunit interface; other site 311402010607 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 311402010608 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402010609 dimer interface [polypeptide binding]; other site 311402010610 conserved gate region; other site 311402010611 ABC-ATPase subunit interface; other site 311402010612 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 311402010613 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 311402010614 peptide binding site [polypeptide binding]; other site 311402010615 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 311402010616 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 311402010617 putative aminotransferase; Validated; Region: PRK07480 311402010618 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402010619 inhibitor-cofactor binding pocket; inhibition site 311402010620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402010621 catalytic residue [active] 311402010622 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 311402010623 Predicted transcriptional regulators [Transcription]; Region: COG1695 311402010624 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 311402010625 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 311402010626 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 311402010627 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 311402010628 Putative Catalytic site; other site 311402010629 DXD motif; other site 311402010630 AMP nucleosidase; Provisional; Region: PRK08292 311402010631 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 311402010632 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 311402010633 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 311402010634 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 311402010635 C-terminal domain interface [polypeptide binding]; other site 311402010636 GSH binding site (G-site) [chemical binding]; other site 311402010637 dimer interface [polypeptide binding]; other site 311402010638 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 311402010639 N-terminal domain interface [polypeptide binding]; other site 311402010640 putative dimer interface [polypeptide binding]; other site 311402010641 active site 311402010642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 311402010643 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 311402010644 Sel1-like repeats; Region: SEL1; smart00671 311402010645 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 311402010646 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402010647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402010648 homodimer interface [polypeptide binding]; other site 311402010649 catalytic residue [active] 311402010650 PilZ domain; Region: PilZ; pfam07238 311402010651 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 311402010652 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402010653 Porin subfamily; Region: Porin_2; pfam02530 311402010654 Porin subfamily; Region: Porin_2; pfam02530 311402010655 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402010656 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 311402010657 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402010658 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402010659 catalytic residue [active] 311402010660 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 311402010661 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 311402010662 dimer interface [polypeptide binding]; other site 311402010663 active site 311402010664 catalytic residue [active] 311402010665 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 311402010666 SmpB-tmRNA interface; other site 311402010667 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 311402010668 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 311402010669 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 311402010670 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 311402010671 DNA binding site [nucleotide binding] 311402010672 active site 311402010673 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 311402010674 heme-binding site [chemical binding]; other site 311402010675 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402010676 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402010677 dimer interface [polypeptide binding]; other site 311402010678 putative CheW interface [polypeptide binding]; other site 311402010679 Uncharacterized conserved protein [Function unknown]; Region: COG1432 311402010680 LabA_like proteins; Region: LabA; cd10911 311402010681 putative metal binding site [ion binding]; other site 311402010682 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 311402010683 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 311402010684 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311402010685 Zn2+ binding site [ion binding]; other site 311402010686 Mg2+ binding site [ion binding]; other site 311402010687 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 311402010688 synthetase active site [active] 311402010689 NTP binding site [chemical binding]; other site 311402010690 metal binding site [ion binding]; metal-binding site 311402010691 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 311402010692 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 311402010693 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 311402010694 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 311402010695 Catalytic site [active] 311402010696 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 311402010697 ribonuclease III; Reviewed; Region: PRK12371 311402010698 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 311402010699 dimerization interface [polypeptide binding]; other site 311402010700 active site 311402010701 metal binding site [ion binding]; metal-binding site 311402010702 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 311402010703 dsRNA binding site [nucleotide binding]; other site 311402010704 GTPase Era; Reviewed; Region: era; PRK00089 311402010705 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 311402010706 G1 box; other site 311402010707 GTP/Mg2+ binding site [chemical binding]; other site 311402010708 Switch I region; other site 311402010709 G2 box; other site 311402010710 Switch II region; other site 311402010711 G3 box; other site 311402010712 G4 box; other site 311402010713 G5 box; other site 311402010714 KH domain; Region: KH_2; pfam07650 311402010715 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 311402010716 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 311402010717 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 311402010718 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 311402010719 Recombination protein O N terminal; Region: RecO_N; pfam11967 311402010720 Recombination protein O C terminal; Region: RecO_C; pfam02565 311402010721 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 311402010722 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 311402010723 MOSC domain; Region: MOSC; pfam03473 311402010724 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 311402010725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311402010726 Zn2+ binding site [ion binding]; other site 311402010727 Mg2+ binding site [ion binding]; other site 311402010728 EF-hand domain pair; Region: EF_hand_5; pfam13499 311402010729 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 311402010730 Ca2+ binding site [ion binding]; other site 311402010731 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 311402010732 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 311402010733 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 311402010734 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 311402010735 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 311402010736 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 311402010737 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 311402010738 nudix motif; other site 311402010739 Uncharacterized conserved protein [Function unknown]; Region: COG2135 311402010740 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 311402010741 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 311402010742 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 311402010743 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 311402010744 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402010745 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 311402010746 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 311402010747 Walker A/P-loop; other site 311402010748 ATP binding site [chemical binding]; other site 311402010749 Q-loop/lid; other site 311402010750 ABC transporter signature motif; other site 311402010751 Walker B; other site 311402010752 D-loop; other site 311402010753 H-loop/switch region; other site 311402010754 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 311402010755 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 311402010756 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 311402010757 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 311402010758 Predicted permeases [General function prediction only]; Region: RarD; COG2962 311402010759 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 311402010760 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 311402010761 active site 311402010762 catalytic residues [active] 311402010763 metal binding site [ion binding]; metal-binding site 311402010764 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 311402010765 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 311402010766 Uncharacterized conserved protein [Function unknown]; Region: COG3791 311402010767 Uncharacterized conserved protein [Function unknown]; Region: COG3791 311402010768 Uncharacterized conserved protein [Function unknown]; Region: COG3791 311402010769 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 311402010770 oligomeric interface; other site 311402010771 putative active site [active] 311402010772 homodimer interface [polypeptide binding]; other site 311402010773 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 311402010774 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 311402010775 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402010776 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 311402010777 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 311402010778 active site 311402010779 HIGH motif; other site 311402010780 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 311402010781 KMSKS motif; other site 311402010782 DALR domain; Region: DALR_2; pfam09190 311402010783 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 311402010784 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 311402010785 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 311402010786 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 311402010787 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 311402010788 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 311402010789 NAD binding site [chemical binding]; other site 311402010790 substrate binding site [chemical binding]; other site 311402010791 homodimer interface [polypeptide binding]; other site 311402010792 active site 311402010793 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 311402010794 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 311402010795 NADP binding site [chemical binding]; other site 311402010796 active site 311402010797 putative substrate binding site [chemical binding]; other site 311402010798 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 311402010799 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 311402010800 substrate binding site; other site 311402010801 tetramer interface; other site 311402010802 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 311402010803 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 311402010804 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 311402010805 Probable Catalytic site; other site 311402010806 metal-binding site 311402010807 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 311402010808 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 311402010809 classical (c) SDRs; Region: SDR_c; cd05233 311402010810 NAD(P) binding site [chemical binding]; other site 311402010811 active site 311402010812 amidophosphoribosyltransferase; Provisional; Region: PRK09123 311402010813 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 311402010814 active site 311402010815 tetramer interface [polypeptide binding]; other site 311402010816 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402010817 active site 311402010818 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 311402010819 Colicin V production protein; Region: Colicin_V; pfam02674 311402010820 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 311402010821 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 311402010822 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 311402010823 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 311402010824 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 311402010825 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 311402010826 NAD binding site [chemical binding]; other site 311402010827 homodimer interface [polypeptide binding]; other site 311402010828 active site 311402010829 substrate binding site [chemical binding]; other site 311402010830 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 311402010831 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402010832 NAD binding site [chemical binding]; other site 311402010833 putative substrate binding site 2 [chemical binding]; other site 311402010834 putative substrate binding site 1 [chemical binding]; other site 311402010835 active site 311402010836 DNA repair protein RadA; Provisional; Region: PRK11823 311402010837 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 311402010838 Walker A motif/ATP binding site; other site 311402010839 ATP binding site [chemical binding]; other site 311402010840 Walker B motif; other site 311402010841 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 311402010842 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 311402010843 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 311402010844 active site 311402010845 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402010846 dimer interface [polypeptide binding]; other site 311402010847 substrate binding site [chemical binding]; other site 311402010848 catalytic residues [active] 311402010849 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 311402010850 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 311402010851 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402010852 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402010853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402010854 dimer interface [polypeptide binding]; other site 311402010855 conserved gate region; other site 311402010856 putative PBP binding loops; other site 311402010857 ABC-ATPase subunit interface; other site 311402010858 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402010859 dimer interface [polypeptide binding]; other site 311402010860 conserved gate region; other site 311402010861 putative PBP binding loops; other site 311402010862 ABC-ATPase subunit interface; other site 311402010863 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402010864 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402010865 substrate binding pocket [chemical binding]; other site 311402010866 membrane-bound complex binding site; other site 311402010867 hinge residues; other site 311402010868 replicative DNA helicase; Provisional; Region: PRK09165 311402010869 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 311402010870 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 311402010871 Walker A motif; other site 311402010872 ATP binding site [chemical binding]; other site 311402010873 Walker B motif; other site 311402010874 DNA binding loops [nucleotide binding] 311402010875 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 311402010876 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 311402010877 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 311402010878 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 311402010879 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 311402010880 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 311402010881 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 311402010882 active site 311402010883 Zn binding site [ion binding]; other site 311402010884 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402010885 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402010886 active site 311402010887 catalytic tetrad [active] 311402010888 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 311402010889 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 311402010890 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 311402010891 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 311402010892 NAD(P) binding site [chemical binding]; other site 311402010893 homotetramer interface [polypeptide binding]; other site 311402010894 homodimer interface [polypeptide binding]; other site 311402010895 active site 311402010896 acyl carrier protein; Provisional; Region: acpP; PRK00982 311402010897 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 311402010898 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 311402010899 dimer interface [polypeptide binding]; other site 311402010900 active site 311402010901 YceG-like family; Region: YceG; pfam02618 311402010902 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 311402010903 dimerization interface [polypeptide binding]; other site 311402010904 hypothetical protein; Provisional; Region: PRK11820 311402010905 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 311402010906 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 311402010907 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 311402010908 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 311402010909 catalytic site [active] 311402010910 G-X2-G-X-G-K; other site 311402010911 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402010912 S-adenosylmethionine binding site [chemical binding]; other site 311402010913 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 311402010914 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 311402010915 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 311402010916 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 311402010917 SurA N-terminal domain; Region: SurA_N; pfam09312 311402010918 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 311402010919 Organic solvent tolerance protein; Region: OstA_C; pfam04453 311402010920 Predicted permeases [General function prediction only]; Region: COG0795 311402010921 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 311402010922 Predicted permeases [General function prediction only]; Region: COG0795 311402010923 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 311402010924 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 311402010925 active site 311402010926 multifunctional aminopeptidase A; Provisional; Region: PRK00913 311402010927 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 311402010928 interface (dimer of trimers) [polypeptide binding]; other site 311402010929 Substrate-binding/catalytic site; other site 311402010930 Zn-binding sites [ion binding]; other site 311402010931 DNA polymerase III subunit chi; Validated; Region: PRK05728 311402010932 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402010933 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402010934 dimerization interface [polypeptide binding]; other site 311402010935 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402010936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402010937 dimer interface [polypeptide binding]; other site 311402010938 putative CheW interface [polypeptide binding]; other site 311402010939 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 311402010940 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402010941 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402010942 ABC transporter; Region: ABC_tran_2; pfam12848 311402010943 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402010944 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 311402010945 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402010946 putative C-terminal domain interface [polypeptide binding]; other site 311402010947 putative GSH binding site (G-site) [chemical binding]; other site 311402010948 putative dimer interface [polypeptide binding]; other site 311402010949 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 311402010950 putative N-terminal domain interface [polypeptide binding]; other site 311402010951 putative dimer interface [polypeptide binding]; other site 311402010952 putative substrate binding pocket (H-site) [chemical binding]; other site 311402010953 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 311402010954 active site 311402010955 multimer interface [polypeptide binding]; other site 311402010956 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 311402010957 MoaE homodimer interface [polypeptide binding]; other site 311402010958 MoaD interaction [polypeptide binding]; other site 311402010959 active site residues [active] 311402010960 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 311402010961 MoaE interaction surface [polypeptide binding]; other site 311402010962 MoeB interaction surface [polypeptide binding]; other site 311402010963 thiocarboxylated glycine; other site 311402010964 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 311402010965 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 311402010966 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 311402010967 GIY-YIG motif/motif A; other site 311402010968 active site 311402010969 catalytic site [active] 311402010970 putative DNA binding site [nucleotide binding]; other site 311402010971 metal binding site [ion binding]; metal-binding site 311402010972 UvrB/uvrC motif; Region: UVR; pfam02151 311402010973 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 311402010974 short chain dehydrogenase; Provisional; Region: PRK09134 311402010975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402010976 NAD(P) binding site [chemical binding]; other site 311402010977 active site 311402010978 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 311402010979 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402010980 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 311402010981 putative C-terminal domain interface [polypeptide binding]; other site 311402010982 putative GSH binding site (G-site) [chemical binding]; other site 311402010983 putative dimer interface [polypeptide binding]; other site 311402010984 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 311402010985 dimer interface [polypeptide binding]; other site 311402010986 N-terminal domain interface [polypeptide binding]; other site 311402010987 putative substrate binding pocket (H-site) [chemical binding]; other site 311402010988 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 311402010989 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 311402010990 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 311402010991 putative [4Fe-4S] binding site [ion binding]; other site 311402010992 putative molybdopterin cofactor binding site [chemical binding]; other site 311402010993 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 311402010994 putative molybdopterin cofactor binding site; other site 311402010995 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 311402010996 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 311402010997 dimer interface [polypeptide binding]; other site 311402010998 ADP-ribose binding site [chemical binding]; other site 311402010999 active site 311402011000 nudix motif; other site 311402011001 metal binding site [ion binding]; metal-binding site 311402011002 Putative phosphatase (DUF442); Region: DUF442; cl17385 311402011003 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 311402011004 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402011005 dimerization interface [polypeptide binding]; other site 311402011006 putative DNA binding site [nucleotide binding]; other site 311402011007 putative Zn2+ binding site [ion binding]; other site 311402011008 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 311402011009 Predicted transporter component [General function prediction only]; Region: COG2391 311402011010 Predicted transporter component [General function prediction only]; Region: COG2391 311402011011 Sulphur transport; Region: Sulf_transp; pfam04143 311402011012 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 311402011013 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 311402011014 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 311402011015 active site 311402011016 substrate binding site [chemical binding]; other site 311402011017 cosubstrate binding site; other site 311402011018 catalytic site [active] 311402011019 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 311402011020 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 311402011021 dimerization interface [polypeptide binding]; other site 311402011022 putative ATP binding site [chemical binding]; other site 311402011023 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 311402011024 Domain of unknown function DUF20; Region: UPF0118; pfam01594 311402011025 hypothetical protein; Validated; Region: PRK09087 311402011026 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 311402011027 polyphosphate kinase; Provisional; Region: PRK05443 311402011028 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 311402011029 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 311402011030 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 311402011031 putative domain interface [polypeptide binding]; other site 311402011032 putative active site [active] 311402011033 catalytic site [active] 311402011034 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 311402011035 putative domain interface [polypeptide binding]; other site 311402011036 putative active site [active] 311402011037 catalytic site [active] 311402011038 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 311402011039 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 311402011040 nucleotide binding site [chemical binding]; other site 311402011041 manganese transport regulator MntR; Provisional; Region: PRK11050 311402011042 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 311402011043 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 311402011044 manganese transport protein MntH; Reviewed; Region: PRK00701 311402011045 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 311402011046 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 311402011047 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 311402011048 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 311402011049 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402011050 Coenzyme A binding pocket [chemical binding]; other site 311402011051 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311402011052 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 311402011053 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 311402011054 catalytic site [active] 311402011055 putative active site [active] 311402011056 putative substrate binding site [chemical binding]; other site 311402011057 HRDC domain; Region: HRDC; pfam00570 311402011058 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 311402011059 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 311402011060 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 311402011061 putative MFS family transporter protein; Provisional; Region: PRK03633 311402011062 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402011063 putative substrate translocation pore; other site 311402011064 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 311402011065 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 311402011066 dimer interface [polypeptide binding]; other site 311402011067 anticodon binding site; other site 311402011068 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 311402011069 homodimer interface [polypeptide binding]; other site 311402011070 motif 1; other site 311402011071 active site 311402011072 motif 2; other site 311402011073 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 311402011074 active site 311402011075 motif 3; other site 311402011076 Predicted membrane protein [Function unknown]; Region: COG4129 311402011077 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 311402011078 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 311402011079 CAP-like domain; other site 311402011080 active site 311402011081 primary dimer interface [polypeptide binding]; other site 311402011082 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311402011083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402011084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402011085 metal binding site [ion binding]; metal-binding site 311402011086 active site 311402011087 I-site; other site 311402011088 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402011089 Methyltransferase domain; Region: Methyltransf_25; pfam13649 311402011090 GAF domain; Region: GAF; pfam01590 311402011091 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 311402011092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402011093 metal binding site [ion binding]; metal-binding site 311402011094 active site 311402011095 I-site; other site 311402011096 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402011097 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 311402011098 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 311402011099 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 311402011100 Predicted membrane protein/domain [Function unknown]; Region: COG1714 311402011101 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 311402011102 dimer interface [polypeptide binding]; other site 311402011103 allosteric magnesium binding site [ion binding]; other site 311402011104 active site 311402011105 aspartate-rich active site metal binding site; other site 311402011106 Schiff base residues; other site 311402011107 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402011108 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 311402011109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 311402011110 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402011111 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402011112 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 311402011113 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 311402011114 dimer interface [polypeptide binding]; other site 311402011115 active site 311402011116 glycine-pyridoxal phosphate binding site [chemical binding]; other site 311402011117 folate binding site [chemical binding]; other site 311402011118 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 311402011119 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 311402011120 ATP cone domain; Region: ATP-cone; pfam03477 311402011121 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 311402011122 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 311402011123 catalytic motif [active] 311402011124 Zn binding site [ion binding]; other site 311402011125 RibD C-terminal domain; Region: RibD_C; cl17279 311402011126 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 311402011127 Lumazine binding domain; Region: Lum_binding; pfam00677 311402011128 Lumazine binding domain; Region: Lum_binding; pfam00677 311402011129 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 311402011130 homopentamer interface [polypeptide binding]; other site 311402011131 active site 311402011132 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 311402011133 putative RNA binding site [nucleotide binding]; other site 311402011134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402011135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402011136 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 311402011137 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 311402011138 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 311402011139 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 311402011140 Uncharacterized conserved protein [Function unknown]; Region: COG5452 311402011141 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 311402011142 putative phosphate acyltransferase; Provisional; Region: PRK05331 311402011143 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 311402011144 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 311402011145 dimer interface [polypeptide binding]; other site 311402011146 active site 311402011147 CoA binding pocket [chemical binding]; other site 311402011148 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 311402011149 IHF dimer interface [polypeptide binding]; other site 311402011150 IHF - DNA interface [nucleotide binding]; other site 311402011151 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 311402011152 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 311402011153 DNA binding residues [nucleotide binding] 311402011154 Protein of unknown function (DUF982); Region: DUF982; pfam06169 311402011155 PRC-barrel domain; Region: PRC; pfam05239 311402011156 PAS domain; Region: PAS_9; pfam13426 311402011157 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 311402011158 Histidine kinase; Region: HisKA_2; pfam07568 311402011159 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 311402011160 Mg2+ binding site [ion binding]; other site 311402011161 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402011162 active site 311402011163 DNA binding site [nucleotide binding] 311402011164 Int/Topo IB signature motif; other site 311402011165 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 311402011166 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402011167 Walker A motif; other site 311402011168 ATP binding site [chemical binding]; other site 311402011169 Walker B motif; other site 311402011170 arginine finger; other site 311402011171 Helix-turn-helix; Region: HTH_3; pfam01381 311402011172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 311402011173 Integrase core domain; Region: rve; pfam00665 311402011174 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 311402011175 active site 311402011176 catalytic residues [active] 311402011177 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 311402011178 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402011179 Walker A motif; other site 311402011180 ATP binding site [chemical binding]; other site 311402011181 Walker B motif; other site 311402011182 arginine finger; other site 311402011183 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 311402011184 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 311402011185 conserved cys residue [active] 311402011186 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 311402011187 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 311402011188 conserved cys residue [active] 311402011189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402011190 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402011191 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 311402011192 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 311402011193 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 311402011194 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 311402011195 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 311402011196 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 311402011197 Uncharacterized conserved protein [Function unknown]; Region: COG4104 311402011198 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 311402011199 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 311402011200 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 311402011201 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402011202 O-Antigen ligase; Region: Wzy_C; cl04850 311402011203 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 311402011204 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 311402011205 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 311402011206 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 311402011207 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 311402011208 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 311402011209 SLBB domain; Region: SLBB; pfam10531 311402011210 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 311402011211 Chain length determinant protein; Region: Wzz; pfam02706 311402011212 AAA domain; Region: AAA_31; pfam13614 311402011213 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 311402011214 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 311402011215 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 311402011216 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 311402011217 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 311402011218 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 311402011219 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 311402011220 putative active site [active] 311402011221 metal binding site [ion binding]; metal-binding site 311402011222 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 311402011223 Phosphotransferase enzyme family; Region: APH; pfam01636 311402011224 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 311402011225 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 311402011226 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 311402011227 agmatinase; Region: agmatinase; TIGR01230 311402011228 oligomer interface [polypeptide binding]; other site 311402011229 putative active site [active] 311402011230 Mn binding site [ion binding]; other site 311402011231 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 311402011232 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 311402011233 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 311402011234 23S rRNA interface [nucleotide binding]; other site 311402011235 L3 interface [polypeptide binding]; other site 311402011236 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 311402011237 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 311402011238 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 311402011239 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 311402011240 homodimer interface [polypeptide binding]; other site 311402011241 substrate-cofactor binding pocket; other site 311402011242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402011243 catalytic residue [active] 311402011244 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 311402011245 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402011246 putative active site [active] 311402011247 putative metal binding site [ion binding]; other site 311402011248 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 311402011249 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 311402011250 Cytochrome P450; Region: p450; cl12078 311402011251 TraX protein; Region: TraX; cl05434 311402011252 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402011253 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402011254 metal binding site [ion binding]; metal-binding site 311402011255 active site 311402011256 I-site; other site 311402011257 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 311402011258 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 311402011259 oligomer interface [polypeptide binding]; other site 311402011260 active site residues [active] 311402011261 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 311402011262 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 311402011263 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402011264 Walker A motif; other site 311402011265 ATP binding site [chemical binding]; other site 311402011266 Walker B motif; other site 311402011267 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 311402011268 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 311402011269 Found in ATP-dependent protease La (LON); Region: LON; smart00464 311402011270 Found in ATP-dependent protease La (LON); Region: LON; smart00464 311402011271 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402011272 Walker A motif; other site 311402011273 ATP binding site [chemical binding]; other site 311402011274 Walker B motif; other site 311402011275 arginine finger; other site 311402011276 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 311402011277 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 311402011278 IHF dimer interface [polypeptide binding]; other site 311402011279 IHF - DNA interface [nucleotide binding]; other site 311402011280 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 311402011281 MFS/sugar transport protein; Region: MFS_2; pfam13347 311402011282 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402011283 MarR family; Region: MarR; pfam01047 311402011284 MarR family; Region: MarR_2; cl17246 311402011285 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 311402011286 acyl-CoA synthetase; Validated; Region: PRK09088 311402011287 acyl-activating enzyme (AAE) consensus motif; other site 311402011288 AMP binding site [chemical binding]; other site 311402011289 active site 311402011290 CoA binding site [chemical binding]; other site 311402011291 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 311402011292 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 311402011293 substrate binding site [chemical binding]; other site 311402011294 oxyanion hole (OAH) forming residues; other site 311402011295 trimer interface [polypeptide binding]; other site 311402011296 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 311402011297 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 311402011298 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 311402011299 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 311402011300 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 311402011301 NADH dehydrogenase subunit D; Validated; Region: PRK06075 311402011302 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 311402011303 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 311402011304 putative dimer interface [polypeptide binding]; other site 311402011305 [2Fe-2S] cluster binding site [ion binding]; other site 311402011306 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 311402011307 SLBB domain; Region: SLBB; pfam10531 311402011308 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 311402011309 Uncharacterized conserved protein [Function unknown]; Region: COG3743 311402011310 NADH dehydrogenase subunit G; Validated; Region: PRK09130 311402011311 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402011312 catalytic loop [active] 311402011313 iron binding site [ion binding]; other site 311402011314 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 311402011315 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 311402011316 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 311402011317 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 311402011318 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 311402011319 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 311402011320 4Fe-4S binding domain; Region: Fer4; pfam00037 311402011321 4Fe-4S binding domain; Region: Fer4; pfam00037 311402011322 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 311402011323 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 311402011324 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 311402011325 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 311402011326 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 311402011327 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 311402011328 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311402011329 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 311402011330 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 311402011331 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311402011332 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 311402011333 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 311402011334 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 311402011335 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 311402011336 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 311402011337 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 311402011338 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 311402011339 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 311402011340 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402011341 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 311402011342 dimer interface [polypeptide binding]; other site 311402011343 substrate binding site [chemical binding]; other site 311402011344 metal binding site [ion binding]; metal-binding site 311402011345 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 311402011346 homotrimer interaction site [polypeptide binding]; other site 311402011347 putative active site [active] 311402011348 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402011349 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402011350 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 311402011351 prolyl-tRNA synthetase; Provisional; Region: PRK12325 311402011352 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 311402011353 dimer interface [polypeptide binding]; other site 311402011354 motif 1; other site 311402011355 active site 311402011356 motif 2; other site 311402011357 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 311402011358 active site 311402011359 motif 3; other site 311402011360 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 311402011361 anticodon binding site; other site 311402011362 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 311402011363 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 311402011364 FtsX-like permease family; Region: FtsX; pfam02687 311402011365 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 311402011366 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 311402011367 Walker A/P-loop; other site 311402011368 ATP binding site [chemical binding]; other site 311402011369 Q-loop/lid; other site 311402011370 ABC transporter signature motif; other site 311402011371 Walker B; other site 311402011372 D-loop; other site 311402011373 H-loop/switch region; other site 311402011374 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 311402011375 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 311402011376 putative active site [active] 311402011377 putative PHP Thumb interface [polypeptide binding]; other site 311402011378 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 311402011379 generic binding surface II; other site 311402011380 generic binding surface I; other site 311402011381 hypothetical protein; Provisional; Region: PRK06132 311402011382 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402011383 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402011384 DNA polymerase IV; Provisional; Region: PRK02794 311402011385 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 311402011386 active site 311402011387 DNA binding site [nucleotide binding] 311402011388 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 311402011389 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402011390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402011391 active site 311402011392 phosphorylation site [posttranslational modification] 311402011393 intermolecular recognition site; other site 311402011394 dimerization interface [polypeptide binding]; other site 311402011395 response regulator PleD; Reviewed; Region: pleD; PRK09581 311402011396 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402011397 active site 311402011398 phosphorylation site [posttranslational modification] 311402011399 intermolecular recognition site; other site 311402011400 dimerization interface [polypeptide binding]; other site 311402011401 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402011402 active site 311402011403 phosphorylation site [posttranslational modification] 311402011404 intermolecular recognition site; other site 311402011405 dimerization interface [polypeptide binding]; other site 311402011406 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402011407 metal binding site [ion binding]; metal-binding site 311402011408 active site 311402011409 I-site; other site 311402011410 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 311402011411 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402011412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402011413 putative substrate translocation pore; other site 311402011414 hypothetical protein; Provisional; Region: PRK05978 311402011415 ribonuclease R; Region: RNase_R; TIGR02063 311402011416 RNB domain; Region: RNB; pfam00773 311402011417 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 311402011418 RNA binding site [nucleotide binding]; other site 311402011419 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 311402011420 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 311402011421 active site 311402011422 interdomain interaction site; other site 311402011423 putative metal-binding site [ion binding]; other site 311402011424 nucleotide binding site [chemical binding]; other site 311402011425 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 311402011426 domain I; other site 311402011427 DNA binding groove [nucleotide binding] 311402011428 phosphate binding site [ion binding]; other site 311402011429 domain II; other site 311402011430 domain III; other site 311402011431 nucleotide binding site [chemical binding]; other site 311402011432 catalytic site [active] 311402011433 domain IV; other site 311402011434 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 311402011435 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 311402011436 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 311402011437 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 311402011438 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 311402011439 DNA protecting protein DprA; Region: dprA; TIGR00732 311402011440 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 311402011441 dihydroorotase; Validated; Region: PRK09059 311402011442 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402011443 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 311402011444 active site 311402011445 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 311402011446 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 311402011447 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 311402011448 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 311402011449 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 311402011450 active site 311402011451 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 311402011452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402011453 Coenzyme A binding pocket [chemical binding]; other site 311402011454 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 311402011455 metal-dependent hydrolase; Provisional; Region: PRK00685 311402011456 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 311402011457 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 311402011458 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 311402011459 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 311402011460 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 311402011461 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402011462 Coenzyme A binding pocket [chemical binding]; other site 311402011463 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402011464 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 311402011465 Coenzyme A binding pocket [chemical binding]; other site 311402011466 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 311402011467 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 311402011468 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; pfam07578 311402011469 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 311402011470 Ligand binding site; other site 311402011471 Putative Catalytic site; other site 311402011472 DXD motif; other site 311402011473 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 311402011474 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 311402011475 GatB domain; Region: GatB_Yqey; smart00845 311402011476 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 311402011477 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402011478 Coenzyme A binding pocket [chemical binding]; other site 311402011479 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 311402011480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402011481 Coenzyme A binding pocket [chemical binding]; other site 311402011482 NADH dehydrogenase; Validated; Region: PRK08183 311402011483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 311402011484 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 311402011485 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 311402011486 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402011487 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 311402011488 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 311402011489 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 311402011490 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402011491 carboxyltransferase (CT) interaction site; other site 311402011492 biotinylation site [posttranslational modification]; other site 311402011493 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 311402011494 Dehydroquinase class II; Region: DHquinase_II; pfam01220 311402011495 trimer interface [polypeptide binding]; other site 311402011496 active site 311402011497 dimer interface [polypeptide binding]; other site 311402011498 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 311402011499 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 311402011500 catalytic residues [active] 311402011501 aspartate aminotransferase; Provisional; Region: PRK05764 311402011502 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402011503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402011504 homodimer interface [polypeptide binding]; other site 311402011505 catalytic residue [active] 311402011506 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402011507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311402011508 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 311402011509 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 311402011510 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 311402011511 AMIN domain; Region: AMIN; pfam11741 311402011512 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 311402011513 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 311402011514 active site 311402011515 metal binding site [ion binding]; metal-binding site 311402011516 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 311402011517 Transglycosylase; Region: Transgly; pfam00912 311402011518 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 311402011519 peptide chain release factor 2; Provisional; Region: PRK07342 311402011520 This domain is found in peptide chain release factors; Region: PCRF; smart00937 311402011521 RF-1 domain; Region: RF-1; pfam00472 311402011522 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 311402011523 active site 311402011524 dimer interface [polypeptide binding]; other site 311402011525 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 311402011526 ATP-NAD kinase; Region: NAD_kinase; pfam01513 311402011527 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 311402011528 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 311402011529 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 311402011530 elongation factor Tu; Reviewed; Region: PRK00049 311402011531 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 311402011532 G1 box; other site 311402011533 GEF interaction site [polypeptide binding]; other site 311402011534 GTP/Mg2+ binding site [chemical binding]; other site 311402011535 Switch I region; other site 311402011536 G2 box; other site 311402011537 G3 box; other site 311402011538 Switch II region; other site 311402011539 G4 box; other site 311402011540 G5 box; other site 311402011541 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 311402011542 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 311402011543 Antibiotic Binding Site [chemical binding]; other site 311402011544 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 311402011545 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 311402011546 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 311402011547 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 311402011548 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 311402011549 putative homodimer interface [polypeptide binding]; other site 311402011550 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 311402011551 heterodimer interface [polypeptide binding]; other site 311402011552 homodimer interface [polypeptide binding]; other site 311402011553 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 311402011554 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 311402011555 23S rRNA interface [nucleotide binding]; other site 311402011556 L7/L12 interface [polypeptide binding]; other site 311402011557 putative thiostrepton binding site; other site 311402011558 L25 interface [polypeptide binding]; other site 311402011559 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 311402011560 mRNA/rRNA interface [nucleotide binding]; other site 311402011561 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 311402011562 23S rRNA interface [nucleotide binding]; other site 311402011563 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 311402011564 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 311402011565 core dimer interface [polypeptide binding]; other site 311402011566 peripheral dimer interface [polypeptide binding]; other site 311402011567 L10 interface [polypeptide binding]; other site 311402011568 L11 interface [polypeptide binding]; other site 311402011569 putative EF-Tu interaction site [polypeptide binding]; other site 311402011570 putative EF-G interaction site [polypeptide binding]; other site 311402011571 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 311402011572 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 311402011573 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 311402011574 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 311402011575 RPB11 interaction site [polypeptide binding]; other site 311402011576 RPB12 interaction site [polypeptide binding]; other site 311402011577 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 311402011578 RPB1 interaction site [polypeptide binding]; other site 311402011579 RPB11 interaction site [polypeptide binding]; other site 311402011580 RPB10 interaction site [polypeptide binding]; other site 311402011581 RPB3 interaction site [polypeptide binding]; other site 311402011582 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 311402011583 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 311402011584 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 311402011585 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 311402011586 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 311402011587 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 311402011588 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 311402011589 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 311402011590 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 311402011591 DNA binding site [nucleotide binding] 311402011592 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 311402011593 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 311402011594 nudix motif; other site 311402011595 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 311402011596 S17 interaction site [polypeptide binding]; other site 311402011597 S8 interaction site; other site 311402011598 16S rRNA interaction site [nucleotide binding]; other site 311402011599 streptomycin interaction site [chemical binding]; other site 311402011600 23S rRNA interaction site [nucleotide binding]; other site 311402011601 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 311402011602 30S ribosomal protein S7; Validated; Region: PRK05302 311402011603 elongation factor G; Reviewed; Region: PRK00007 311402011604 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 311402011605 G1 box; other site 311402011606 putative GEF interaction site [polypeptide binding]; other site 311402011607 GTP/Mg2+ binding site [chemical binding]; other site 311402011608 Switch I region; other site 311402011609 G2 box; other site 311402011610 G3 box; other site 311402011611 Switch II region; other site 311402011612 G4 box; other site 311402011613 G5 box; other site 311402011614 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 311402011615 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 311402011616 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 311402011617 elongation factor Tu; Reviewed; Region: PRK00049 311402011618 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 311402011619 G1 box; other site 311402011620 GEF interaction site [polypeptide binding]; other site 311402011621 GTP/Mg2+ binding site [chemical binding]; other site 311402011622 Switch I region; other site 311402011623 G2 box; other site 311402011624 G3 box; other site 311402011625 Switch II region; other site 311402011626 G4 box; other site 311402011627 G5 box; other site 311402011628 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 311402011629 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 311402011630 Antibiotic Binding Site [chemical binding]; other site 311402011631 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 311402011632 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 311402011633 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 311402011634 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 311402011635 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 311402011636 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 311402011637 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 311402011638 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 311402011639 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 311402011640 putative translocon binding site; other site 311402011641 protein-rRNA interface [nucleotide binding]; other site 311402011642 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 311402011643 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 311402011644 G-X-X-G motif; other site 311402011645 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 311402011646 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 311402011647 23S rRNA interface [nucleotide binding]; other site 311402011648 5S rRNA interface [nucleotide binding]; other site 311402011649 putative antibiotic binding site [chemical binding]; other site 311402011650 L25 interface [polypeptide binding]; other site 311402011651 L27 interface [polypeptide binding]; other site 311402011652 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 311402011653 23S rRNA interface [nucleotide binding]; other site 311402011654 putative translocon interaction site; other site 311402011655 signal recognition particle (SRP54) interaction site; other site 311402011656 L23 interface [polypeptide binding]; other site 311402011657 trigger factor interaction site; other site 311402011658 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 311402011659 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 311402011660 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 311402011661 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 311402011662 RNA binding site [nucleotide binding]; other site 311402011663 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 311402011664 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 311402011665 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 311402011666 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 311402011667 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 311402011668 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 311402011669 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 311402011670 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 311402011671 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 311402011672 23S rRNA interface [nucleotide binding]; other site 311402011673 L21e interface [polypeptide binding]; other site 311402011674 5S rRNA interface [nucleotide binding]; other site 311402011675 L27 interface [polypeptide binding]; other site 311402011676 L5 interface [polypeptide binding]; other site 311402011677 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 311402011678 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 311402011679 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 311402011680 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 311402011681 23S rRNA binding site [nucleotide binding]; other site 311402011682 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 311402011683 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 311402011684 SecY translocase; Region: SecY; pfam00344 311402011685 adenylate kinase; Reviewed; Region: adk; PRK00279 311402011686 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 311402011687 AMP-binding site [chemical binding]; other site 311402011688 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 311402011689 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 311402011690 30S ribosomal protein S13; Region: bact_S13; TIGR03631 311402011691 30S ribosomal protein S11; Validated; Region: PRK05309 311402011692 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 311402011693 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 311402011694 alphaNTD homodimer interface [polypeptide binding]; other site 311402011695 alphaNTD - beta interaction site [polypeptide binding]; other site 311402011696 alphaNTD - beta' interaction site [polypeptide binding]; other site 311402011697 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 311402011698 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 311402011699 Purine nucleoside permease (NUP); Region: NUP; pfam06516 311402011700 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 311402011701 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 311402011702 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 311402011703 active site residue [active] 311402011704 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 311402011705 active site residue [active] 311402011706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311402011707 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 311402011708 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 311402011709 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 311402011710 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 311402011711 dimer interface [polypeptide binding]; other site 311402011712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402011713 catalytic residue [active] 311402011714 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 311402011715 DNA photolyase; Region: DNA_photolyase; pfam00875 311402011716 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 311402011717 Peptidase family M23; Region: Peptidase_M23; pfam01551 311402011718 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 311402011719 dinuclear metal binding motif [ion binding]; other site 311402011720 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 311402011721 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 311402011722 catalytic triad [active] 311402011723 Protein of unknown function; Region: DUF3971; pfam13116 311402011724 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 311402011725 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 311402011726 Autoinducer synthetase; Region: Autoind_synth; cl17404 311402011727 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402011728 DNA binding residues [nucleotide binding] 311402011729 dimerization interface [polypeptide binding]; other site 311402011730 malic enzyme; Reviewed; Region: PRK12862 311402011731 Malic enzyme, N-terminal domain; Region: malic; pfam00390 311402011732 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 311402011733 putative NAD(P) binding site [chemical binding]; other site 311402011734 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 311402011735 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402011736 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 311402011737 putative active site [active] 311402011738 putative metal binding site [ion binding]; other site 311402011739 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 311402011740 anti sigma factor interaction site; other site 311402011741 regulatory phosphorylation site [posttranslational modification]; other site 311402011742 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 311402011743 Permease; Region: Permease; pfam02405 311402011744 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 311402011745 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 311402011746 Walker A/P-loop; other site 311402011747 ATP binding site [chemical binding]; other site 311402011748 Q-loop/lid; other site 311402011749 ABC transporter signature motif; other site 311402011750 Walker B; other site 311402011751 D-loop; other site 311402011752 H-loop/switch region; other site 311402011753 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 311402011754 mce related protein; Region: MCE; pfam02470 311402011755 Protein of unknown function (DUF330); Region: DUF330; cl01135 311402011756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 311402011757 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 311402011758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402011759 DNA-binding site [nucleotide binding]; DNA binding site 311402011760 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402011761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402011762 homodimer interface [polypeptide binding]; other site 311402011763 catalytic residue [active] 311402011764 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 311402011765 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 311402011766 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 311402011767 putative active site [active] 311402011768 catalytic triad [active] 311402011769 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 311402011770 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 311402011771 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 311402011772 ATP binding site [chemical binding]; other site 311402011773 active site 311402011774 substrate binding site [chemical binding]; other site 311402011775 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 311402011776 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402011777 Tannase and feruloyl esterase; Region: Tannase; pfam07519 311402011778 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402011779 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402011780 metal binding site [ion binding]; metal-binding site 311402011781 active site 311402011782 I-site; other site 311402011783 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 311402011784 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402011785 putative C-terminal domain interface [polypeptide binding]; other site 311402011786 putative GSH binding site (G-site) [chemical binding]; other site 311402011787 putative dimer interface [polypeptide binding]; other site 311402011788 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 311402011789 dimer interface [polypeptide binding]; other site 311402011790 N-terminal domain interface [polypeptide binding]; other site 311402011791 putative substrate binding pocket (H-site) [chemical binding]; other site 311402011792 isocitrate dehydrogenase; Validated; Region: PRK08299 311402011793 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 311402011794 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 311402011795 glutamate racemase; Provisional; Region: PRK00865 311402011796 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 311402011797 putative hydrophobic ligand binding site [chemical binding]; other site 311402011798 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 311402011799 Domain of unknown function DUF21; Region: DUF21; pfam01595 311402011800 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 311402011801 Transporter associated domain; Region: CorC_HlyC; smart01091 311402011802 Domain of unknown function DUF87; Region: DUF87; pfam01935 311402011803 HerA helicase [Replication, recombination, and repair]; Region: COG0433 311402011804 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 311402011805 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 311402011806 peptidase T; Region: peptidase-T; TIGR01882 311402011807 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 311402011808 metal binding site [ion binding]; metal-binding site 311402011809 dimer interface [polypeptide binding]; other site 311402011810 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 311402011811 active site clefts [active] 311402011812 zinc binding site [ion binding]; other site 311402011813 dimer interface [polypeptide binding]; other site 311402011814 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 311402011815 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 311402011816 Sulfate transporter family; Region: Sulfate_transp; pfam00916 311402011817 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 311402011818 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 311402011819 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 311402011820 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 311402011821 RNA binding surface [nucleotide binding]; other site 311402011822 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 311402011823 glutaminase; Provisional; Region: PRK00971 311402011824 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 311402011825 putative active site [active] 311402011826 YdjC motif; other site 311402011827 Mg binding site [ion binding]; other site 311402011828 putative homodimer interface [polypeptide binding]; other site 311402011829 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 311402011830 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 311402011831 Ligand Binding Site [chemical binding]; other site 311402011832 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 311402011833 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 311402011834 active site 311402011835 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 311402011836 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 311402011837 active site 311402011838 putative lithium-binding site [ion binding]; other site 311402011839 substrate binding site [chemical binding]; other site 311402011840 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 311402011841 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402011842 putative substrate translocation pore; other site 311402011843 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 311402011844 putative GSH binding site [chemical binding]; other site 311402011845 catalytic residues [active] 311402011846 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 311402011847 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 311402011848 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 311402011849 dimerization interface [polypeptide binding]; other site 311402011850 ATP binding site [chemical binding]; other site 311402011851 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 311402011852 dimerization interface [polypeptide binding]; other site 311402011853 ATP binding site [chemical binding]; other site 311402011854 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 311402011855 DnaJ domain; Region: DnaJ; pfam00226 311402011856 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 311402011857 non-specific DNA binding site [nucleotide binding]; other site 311402011858 salt bridge; other site 311402011859 sequence-specific DNA binding site [nucleotide binding]; other site 311402011860 lipoate-protein ligase B; Provisional; Region: PRK14341 311402011861 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 311402011862 ABC-2 type transporter; Region: ABC2_membrane; cl17235 311402011863 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 311402011864 active site 311402011865 catalytic residues [active] 311402011866 DNA binding site [nucleotide binding] 311402011867 Int/Topo IB signature motif; other site 311402011868 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402011869 non-specific DNA binding site [nucleotide binding]; other site 311402011870 salt bridge; other site 311402011871 sequence-specific DNA binding site [nucleotide binding]; other site 311402011872 Predicted transcriptional regulator [Transcription]; Region: COG2932 311402011873 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 311402011874 Catalytic site [active] 311402011875 Helix-turn-helix domain; Region: HTH_36; pfam13730 311402011876 Transcription antiterminator [Transcription]; Region: NusG; COG0250 311402011877 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), AnFA1; Region: NGN_SP_AnfA1; cd09894 311402011878 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 311402011879 heterodimer interface [polypeptide binding]; other site 311402011880 homodimer interface [polypeptide binding]; other site 311402011881 Phage terminase, small subunit; Region: Terminase_4; pfam05119 311402011882 Phage Terminase; Region: Terminase_1; pfam03354 311402011883 Phage-related protein [Function unknown]; Region: COG4695; cl01923 311402011884 Phage portal protein; Region: Phage_portal; pfam04860 311402011885 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 311402011886 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 311402011887 Phage capsid family; Region: Phage_capsid; pfam05065 311402011888 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 311402011889 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 311402011890 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 311402011891 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 311402011892 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 311402011893 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 311402011894 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 311402011895 substrate binding site; other site 311402011896 tetramer interface; other site 311402011897 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 311402011898 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 311402011899 NADP binding site [chemical binding]; other site 311402011900 active site 311402011901 putative substrate binding site [chemical binding]; other site 311402011902 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 311402011903 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 311402011904 NAD binding site [chemical binding]; other site 311402011905 substrate binding site [chemical binding]; other site 311402011906 homodimer interface [polypeptide binding]; other site 311402011907 active site 311402011908 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 311402011909 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 311402011910 Putative phage tail protein; Region: Phage-tail_3; pfam13550 311402011911 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402011912 non-specific DNA binding site [nucleotide binding]; other site 311402011913 salt bridge; other site 311402011914 sequence-specific DNA binding site [nucleotide binding]; other site 311402011915 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 311402011916 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 311402011917 Rhamnan synthesis protein F; Region: RgpF; pfam05045 311402011918 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 311402011919 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 311402011920 Probable Catalytic site; other site 311402011921 metal-binding site 311402011922 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 311402011923 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 311402011924 Probable Catalytic site; other site 311402011925 metal-binding site 311402011926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 311402011927 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 311402011928 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 311402011929 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 311402011930 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 311402011931 PemK-like protein; Region: PemK; cl00995 311402011932 Predicted aspartyl protease [General function prediction only]; Region: COG3577 311402011933 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 311402011934 catalytic motif [active] 311402011935 Catalytic residue [active] 311402011936 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 311402011937 cobalamin synthase; Reviewed; Region: cobS; PRK00235 311402011938 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 311402011939 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 311402011940 putative dimer interface [polypeptide binding]; other site 311402011941 active site pocket [active] 311402011942 putative cataytic base [active] 311402011943 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 311402011944 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 311402011945 BON domain; Region: BON; pfam04972 311402011946 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 311402011947 active site 311402011948 catalytic residues [active] 311402011949 metal binding site [ion binding]; metal-binding site 311402011950 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 311402011951 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402011952 ligand binding site [chemical binding]; other site 311402011953 flexible hinge region; other site 311402011954 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 311402011955 putative switch regulator; other site 311402011956 non-specific DNA interactions [nucleotide binding]; other site 311402011957 DNA binding site [nucleotide binding] 311402011958 sequence specific DNA binding site [nucleotide binding]; other site 311402011959 putative cAMP binding site [chemical binding]; other site 311402011960 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 311402011961 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402011962 FeS/SAM binding site; other site 311402011963 HemN C-terminal domain; Region: HemN_C; pfam06969 311402011964 acyl carrier protein; Provisional; Region: PRK06508 311402011965 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 311402011966 active site 2 [active] 311402011967 active site 1 [active] 311402011968 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 311402011969 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 311402011970 active site 311402011971 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 311402011972 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 311402011973 dimer interface [polypeptide binding]; other site 311402011974 active site 311402011975 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 311402011976 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 311402011977 putative NAD(P) binding site [chemical binding]; other site 311402011978 structural Zn binding site [ion binding]; other site 311402011979 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 311402011980 putative acyl-acceptor binding pocket; other site 311402011981 NAD synthetase; Provisional; Region: PRK13981 311402011982 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 311402011983 multimer interface [polypeptide binding]; other site 311402011984 active site 311402011985 catalytic triad [active] 311402011986 protein interface 1 [polypeptide binding]; other site 311402011987 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 311402011988 homodimer interface [polypeptide binding]; other site 311402011989 NAD binding pocket [chemical binding]; other site 311402011990 ATP binding pocket [chemical binding]; other site 311402011991 Mg binding site [ion binding]; other site 311402011992 active-site loop [active] 311402011993 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 311402011994 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 311402011995 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 311402011996 putative FMN binding site [chemical binding]; other site 311402011997 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 311402011998 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 311402011999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402012000 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402012001 EamA-like transporter family; Region: EamA; pfam00892 311402012002 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 311402012003 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 311402012004 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 311402012005 DNA binding site [nucleotide binding] 311402012006 active site 311402012007 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 311402012008 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 311402012009 active site 311402012010 HIGH motif; other site 311402012011 dimer interface [polypeptide binding]; other site 311402012012 KMSKS motif; other site 311402012013 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 311402012014 RNA binding surface [nucleotide binding]; other site 311402012015 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 311402012016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402012017 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311402012018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402012019 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402012020 dimer interface [polypeptide binding]; other site 311402012021 phosphorylation site [posttranslational modification] 311402012022 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402012023 ATP binding site [chemical binding]; other site 311402012024 Mg2+ binding site [ion binding]; other site 311402012025 G-X-G motif; other site 311402012026 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 311402012027 Staphylococcal nuclease homologues; Region: SNc; smart00318 311402012028 Catalytic site; other site 311402012029 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 311402012030 putative uracil binding site [chemical binding]; other site 311402012031 putative active site [active] 311402012032 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402012033 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402012034 putative DNA binding site [nucleotide binding]; other site 311402012035 putative Zn2+ binding site [ion binding]; other site 311402012036 AsnC family; Region: AsnC_trans_reg; pfam01037 311402012037 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 311402012038 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 311402012039 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 311402012040 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 311402012041 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 311402012042 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402012043 dimer interface [polypeptide binding]; other site 311402012044 conserved gate region; other site 311402012045 putative PBP binding loops; other site 311402012046 ABC-ATPase subunit interface; other site 311402012047 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 311402012048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402012049 dimer interface [polypeptide binding]; other site 311402012050 conserved gate region; other site 311402012051 putative PBP binding loops; other site 311402012052 ABC-ATPase subunit interface; other site 311402012053 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402012054 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402012055 substrate binding pocket [chemical binding]; other site 311402012056 membrane-bound complex binding site; other site 311402012057 hinge residues; other site 311402012058 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 311402012059 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 311402012060 ligand binding site [chemical binding]; other site 311402012061 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 311402012062 Walker A motif; other site 311402012063 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 311402012064 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 311402012065 GTP binding site; other site 311402012066 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311402012067 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 311402012068 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402012069 FeS/SAM binding site; other site 311402012070 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 311402012071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 311402012072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402012073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402012074 metal binding site [ion binding]; metal-binding site 311402012075 active site 311402012076 I-site; other site 311402012077 fumarate hydratase; Provisional; Region: PRK15389 311402012078 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 311402012079 Fumarase C-terminus; Region: Fumerase_C; pfam05683 311402012080 fumarate hydratase; Reviewed; Region: fumC; PRK00485 311402012081 Class II fumarases; Region: Fumarase_classII; cd01362 311402012082 active site 311402012083 tetramer interface [polypeptide binding]; other site 311402012084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 311402012085 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402012086 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402012087 phosphoglycolate phosphatase; Provisional; Region: PRK13222 311402012088 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402012089 motif II; other site 311402012090 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 311402012091 tetramer (dimer of dimers) interface [polypeptide binding]; other site 311402012092 active site 311402012093 dimer interface [polypeptide binding]; other site 311402012094 glutathione reductase; Validated; Region: PRK06116 311402012095 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 311402012096 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402012097 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 311402012098 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 311402012099 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 311402012100 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 311402012101 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 311402012102 Low-spin heme binding site [chemical binding]; other site 311402012103 Putative water exit pathway; other site 311402012104 Binuclear center (active site) [active] 311402012105 Putative proton exit pathway; other site 311402012106 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 311402012107 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 311402012108 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 311402012109 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 311402012110 Cytochrome c; Region: Cytochrom_C; pfam00034 311402012111 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 311402012112 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 311402012113 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402012114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402012115 metal binding site [ion binding]; metal-binding site 311402012116 active site 311402012117 I-site; other site 311402012118 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402012119 excinuclease ABC subunit B; Provisional; Region: PRK05298 311402012120 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 311402012121 ATP binding site [chemical binding]; other site 311402012122 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402012123 nucleotide binding region [chemical binding]; other site 311402012124 ATP-binding site [chemical binding]; other site 311402012125 Ultra-violet resistance protein B; Region: UvrB; pfam12344 311402012126 UvrB/uvrC motif; Region: UVR; pfam02151 311402012127 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 311402012128 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 311402012129 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 311402012130 Amidohydrolase; Region: Amidohydro_4; pfam13147 311402012131 active site 311402012132 cytosine deaminase; Provisional; Region: PRK05985 311402012133 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 311402012134 active site 311402012135 UTRA domain; Region: UTRA; cl17743 311402012136 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 311402012137 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 311402012138 enolase; Provisional; Region: eno; PRK00077 311402012139 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 311402012140 dimer interface [polypeptide binding]; other site 311402012141 metal binding site [ion binding]; metal-binding site 311402012142 substrate binding pocket [chemical binding]; other site 311402012143 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 311402012144 Septum formation initiator; Region: DivIC; pfam04977 311402012145 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 311402012146 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 311402012147 tetramer interface [polypeptide binding]; other site 311402012148 TPP-binding site [chemical binding]; other site 311402012149 heterodimer interface [polypeptide binding]; other site 311402012150 phosphorylation loop region [posttranslational modification] 311402012151 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 311402012152 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 311402012153 E3 interaction surface; other site 311402012154 lipoyl attachment site [posttranslational modification]; other site 311402012155 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 311402012156 alpha subunit interface [polypeptide binding]; other site 311402012157 TPP binding site [chemical binding]; other site 311402012158 heterodimer interface [polypeptide binding]; other site 311402012159 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 311402012160 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 311402012161 E3 interaction surface; other site 311402012162 lipoyl attachment site [posttranslational modification]; other site 311402012163 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 311402012164 e3 binding domain; Region: E3_binding; pfam02817 311402012165 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 311402012166 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 311402012167 active site 311402012168 catalytic triad [active] 311402012169 oxyanion hole [active] 311402012170 Protein of unknown function (DUF465); Region: DUF465; cl01070 311402012171 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 311402012172 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 311402012173 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 311402012174 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402012175 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 311402012176 Predicted membrane protein [Function unknown]; Region: COG2261 311402012177 lipoyl synthase; Provisional; Region: PRK05481 311402012178 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402012179 FeS/SAM binding site; other site 311402012180 topology modulation protein; Reviewed; Region: PRK08118 311402012181 AAA domain; Region: AAA_17; pfam13207 311402012182 topology modulation protein; Reviewed; Region: PRK08118 311402012183 AAA domain; Region: AAA_17; pfam13207 311402012184 metabolite-proton symporter; Region: 2A0106; TIGR00883 311402012185 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402012186 putative substrate translocation pore; other site 311402012187 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 311402012188 putative coenzyme Q binding site [chemical binding]; other site 311402012189 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 311402012190 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 311402012191 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 311402012192 substrate binding site; other site 311402012193 dimer interface; other site 311402012194 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 311402012195 homotrimer interaction site [polypeptide binding]; other site 311402012196 zinc binding site [ion binding]; other site 311402012197 CDP-binding sites; other site 311402012198 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 311402012199 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 311402012200 FMN binding site [chemical binding]; other site 311402012201 active site 311402012202 catalytic residues [active] 311402012203 substrate binding site [chemical binding]; other site 311402012204 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 311402012205 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402012206 dimer interface [polypeptide binding]; other site 311402012207 phosphorylation site [posttranslational modification] 311402012208 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402012209 ATP binding site [chemical binding]; other site 311402012210 Mg2+ binding site [ion binding]; other site 311402012211 G-X-G motif; other site 311402012212 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 311402012213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402012214 active site 311402012215 phosphorylation site [posttranslational modification] 311402012216 intermolecular recognition site; other site 311402012217 dimerization interface [polypeptide binding]; other site 311402012218 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402012219 Walker A motif; other site 311402012220 ATP binding site [chemical binding]; other site 311402012221 Walker B motif; other site 311402012222 arginine finger; other site 311402012223 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 311402012224 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 311402012225 HAMP domain; Region: HAMP; pfam00672 311402012226 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402012227 dimer interface [polypeptide binding]; other site 311402012228 phosphorylation site [posttranslational modification] 311402012229 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402012230 ATP binding site [chemical binding]; other site 311402012231 Mg2+ binding site [ion binding]; other site 311402012232 G-X-G motif; other site 311402012233 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 311402012234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402012235 active site 311402012236 phosphorylation site [posttranslational modification] 311402012237 intermolecular recognition site; other site 311402012238 dimerization interface [polypeptide binding]; other site 311402012239 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402012240 Walker A motif; other site 311402012241 ATP binding site [chemical binding]; other site 311402012242 Walker B motif; other site 311402012243 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 311402012244 bacterial Hfq-like; Region: Hfq; cd01716 311402012245 hexamer interface [polypeptide binding]; other site 311402012246 Sm1 motif; other site 311402012247 RNA binding site [nucleotide binding]; other site 311402012248 Sm2 motif; other site 311402012249 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 311402012250 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 311402012251 HflX GTPase family; Region: HflX; cd01878 311402012252 G1 box; other site 311402012253 GTP/Mg2+ binding site [chemical binding]; other site 311402012254 Switch I region; other site 311402012255 G2 box; other site 311402012256 G3 box; other site 311402012257 Switch II region; other site 311402012258 G4 box; other site 311402012259 G5 box; other site 311402012260 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 311402012261 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 311402012262 homodimer interface [polypeptide binding]; other site 311402012263 metal binding site [ion binding]; metal-binding site 311402012264 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 311402012265 homodimer interface [polypeptide binding]; other site 311402012266 active site 311402012267 putative chemical substrate binding site [chemical binding]; other site 311402012268 metal binding site [ion binding]; metal-binding site 311402012269 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 311402012270 nucleoside/Zn binding site; other site 311402012271 dimer interface [polypeptide binding]; other site 311402012272 catalytic motif [active] 311402012273 siroheme synthase; Provisional; Region: cysG; PRK10637 311402012274 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 311402012275 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 311402012276 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 311402012277 active site 311402012278 SAM binding site [chemical binding]; other site 311402012279 homodimer interface [polypeptide binding]; other site 311402012280 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 311402012281 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 311402012282 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 311402012283 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 311402012284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 311402012285 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 311402012286 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 311402012287 FAD binding pocket [chemical binding]; other site 311402012288 FAD binding motif [chemical binding]; other site 311402012289 phosphate binding motif [ion binding]; other site 311402012290 beta-alpha-beta structure motif; other site 311402012291 NAD binding pocket [chemical binding]; other site 311402012292 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 311402012293 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 311402012294 putative NAD(P) binding site [chemical binding]; other site 311402012295 putative active site [active] 311402012296 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 311402012297 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 311402012298 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 311402012299 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 311402012300 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 311402012301 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 311402012302 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 311402012303 TMP-binding site; other site 311402012304 ATP-binding site [chemical binding]; other site 311402012305 DNA polymerase III subunit delta'; Validated; Region: PRK09112 311402012306 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 311402012307 DNA polymerase III subunit delta'; Validated; Region: PRK08485 311402012308 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 311402012309 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 311402012310 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 311402012311 active site 311402012312 HIGH motif; other site 311402012313 KMSKS motif; other site 311402012314 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 311402012315 tRNA binding surface [nucleotide binding]; other site 311402012316 anticodon binding site; other site 311402012317 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 311402012318 active site 311402012319 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 311402012320 putative hydrolase; Provisional; Region: PRK02113 311402012321 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 311402012322 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 311402012323 Cl- selectivity filter; other site 311402012324 Cl- binding residues [ion binding]; other site 311402012325 pore gating glutamate residue; other site 311402012326 dimer interface [polypeptide binding]; other site 311402012327 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 311402012328 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 311402012329 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 311402012330 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 311402012331 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402012332 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 311402012333 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 311402012334 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 311402012335 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402012336 Walker A/P-loop; other site 311402012337 ATP binding site [chemical binding]; other site 311402012338 Q-loop/lid; other site 311402012339 ABC transporter signature motif; other site 311402012340 Walker B; other site 311402012341 D-loop; other site 311402012342 H-loop/switch region; other site 311402012343 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402012344 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402012345 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402012346 TM-ABC transporter signature motif; other site 311402012347 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402012348 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 311402012349 TM-ABC transporter signature motif; other site 311402012350 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 311402012351 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 311402012352 putative ligand binding site [chemical binding]; other site 311402012353 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 311402012354 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 311402012355 Substrate binding site; other site 311402012356 Mg++ binding site; other site 311402012357 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 311402012358 active site 311402012359 substrate binding site [chemical binding]; other site 311402012360 CoA binding site [chemical binding]; other site 311402012361 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 311402012362 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 311402012363 glutaminase active site [active] 311402012364 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 311402012365 dimer interface [polypeptide binding]; other site 311402012366 active site 311402012367 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 311402012368 dimer interface [polypeptide binding]; other site 311402012369 active site 311402012370 Uncharacterized conserved protein [Function unknown]; Region: COG2928 311402012371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 311402012372 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 311402012373 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 311402012374 putative active site [active] 311402012375 catalytic site [active] 311402012376 putative metal binding site [ion binding]; other site 311402012377 oligomer interface [polypeptide binding]; other site 311402012378 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402012379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402012380 dimer interface [polypeptide binding]; other site 311402012381 conserved gate region; other site 311402012382 putative PBP binding loops; other site 311402012383 ABC-ATPase subunit interface; other site 311402012384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402012385 dimer interface [polypeptide binding]; other site 311402012386 conserved gate region; other site 311402012387 putative PBP binding loops; other site 311402012388 ABC-ATPase subunit interface; other site 311402012389 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402012390 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402012391 Walker A/P-loop; other site 311402012392 ATP binding site [chemical binding]; other site 311402012393 Q-loop/lid; other site 311402012394 ABC transporter signature motif; other site 311402012395 Walker B; other site 311402012396 D-loop; other site 311402012397 H-loop/switch region; other site 311402012398 TOBE domain; Region: TOBE_2; pfam08402 311402012399 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 311402012400 hypothetical protein; Provisional; Region: PRK11622 311402012401 MarR family; Region: MarR_2; pfam12802 311402012402 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 311402012403 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 311402012404 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 311402012405 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 311402012406 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 311402012407 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 311402012408 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 311402012409 metal binding site [ion binding]; metal-binding site 311402012410 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 311402012411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402012412 Walker A/P-loop; other site 311402012413 ATP binding site [chemical binding]; other site 311402012414 Q-loop/lid; other site 311402012415 ABC transporter signature motif; other site 311402012416 Walker B; other site 311402012417 D-loop; other site 311402012418 H-loop/switch region; other site 311402012419 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 311402012420 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 311402012421 ABC-ATPase subunit interface; other site 311402012422 dimer interface [polypeptide binding]; other site 311402012423 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 311402012424 metal binding site 2 [ion binding]; metal-binding site 311402012425 putative DNA binding helix; other site 311402012426 metal binding site 1 [ion binding]; metal-binding site 311402012427 dimer interface [polypeptide binding]; other site 311402012428 structural Zn2+ binding site [ion binding]; other site 311402012429 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 311402012430 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 311402012431 trimer interface [polypeptide binding]; other site 311402012432 putative metal binding site [ion binding]; other site 311402012433 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 311402012434 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 311402012435 Sporulation related domain; Region: SPOR; pfam05036 311402012436 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 311402012437 PilZ domain; Region: PilZ; pfam07238 311402012438 PilZ domain; Region: PilZ; pfam07238 311402012439 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 311402012440 active site 311402012441 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 311402012442 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 311402012443 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 311402012444 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 311402012445 FOG: CBS domain [General function prediction only]; Region: COG0517 311402012446 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 311402012447 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 311402012448 nucleophile elbow; other site 311402012449 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 311402012450 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 311402012451 active site 311402012452 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 311402012453 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 311402012454 trimerization site [polypeptide binding]; other site 311402012455 active site 311402012456 hypothetical protein; Validated; Region: PRK00041 311402012457 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 311402012458 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 311402012459 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 311402012460 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 311402012461 active site 311402012462 dimer interface [polypeptide binding]; other site 311402012463 motif 1; other site 311402012464 motif 2; other site 311402012465 motif 3; other site 311402012466 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 311402012467 anticodon binding site; other site 311402012468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 311402012469 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 311402012470 quinolinate synthetase; Provisional; Region: PRK09375 311402012471 L-aspartate oxidase; Provisional; Region: PRK07512 311402012472 L-aspartate oxidase; Provisional; Region: PRK06175 311402012473 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 311402012474 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 311402012475 dimerization interface [polypeptide binding]; other site 311402012476 active site 311402012477 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 311402012478 putative FMN binding site [chemical binding]; other site 311402012479 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 311402012480 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 311402012481 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 311402012482 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402012483 Coenzyme A binding pocket [chemical binding]; other site 311402012484 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 311402012485 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402012486 Mg2+ binding site [ion binding]; other site 311402012487 G-X-G motif; other site 311402012488 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 311402012489 anchoring element; other site 311402012490 dimer interface [polypeptide binding]; other site 311402012491 ATP binding site [chemical binding]; other site 311402012492 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 311402012493 active site 311402012494 putative metal-binding site [ion binding]; other site 311402012495 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 311402012496 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 311402012497 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402012498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402012499 metal binding site [ion binding]; metal-binding site 311402012500 active site 311402012501 I-site; other site 311402012502 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 311402012503 triosephosphate isomerase; Provisional; Region: PRK14565 311402012504 substrate binding site [chemical binding]; other site 311402012505 dimer interface [polypeptide binding]; other site 311402012506 catalytic triad [active] 311402012507 CTP synthetase; Validated; Region: pyrG; PRK05380 311402012508 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 311402012509 Catalytic site [active] 311402012510 active site 311402012511 UTP binding site [chemical binding]; other site 311402012512 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 311402012513 active site 311402012514 putative oxyanion hole; other site 311402012515 catalytic triad [active] 311402012516 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 311402012517 Beta-lactamase; Region: Beta-lactamase; pfam00144 311402012518 agmatinase; Region: agmatinase; TIGR01230 311402012519 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 311402012520 active site 311402012521 metal binding site [ion binding]; metal-binding site 311402012522 Protein of unknown function (DUF4013); Region: DUF4013; pfam13197 311402012523 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 311402012524 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402012525 catalytic loop [active] 311402012526 iron binding site [ion binding]; other site 311402012527 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 311402012528 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 311402012529 dihydropteroate synthase; Region: DHPS; TIGR01496 311402012530 substrate binding pocket [chemical binding]; other site 311402012531 dimer interface [polypeptide binding]; other site 311402012532 inhibitor binding site; inhibition site 311402012533 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 311402012534 homooctamer interface [polypeptide binding]; other site 311402012535 active site 311402012536 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 311402012537 catalytic center binding site [active] 311402012538 ATP binding site [chemical binding]; other site 311402012539 glycine dehydrogenase; Provisional; Region: PRK05367 311402012540 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 311402012541 tetramer interface [polypeptide binding]; other site 311402012542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402012543 catalytic residue [active] 311402012544 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 311402012545 tetramer interface [polypeptide binding]; other site 311402012546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402012547 catalytic residue [active] 311402012548 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 311402012549 lipoyl attachment site [posttranslational modification]; other site 311402012550 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 311402012551 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 311402012552 Protein of unknown function (DUF461); Region: DUF461; pfam04314 311402012553 camphor resistance protein CrcB; Provisional; Region: PRK14195 311402012554 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 311402012555 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 311402012556 active site 311402012557 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 311402012558 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402012559 motif II; other site 311402012560 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 311402012561 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 311402012562 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 311402012563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402012564 putative substrate translocation pore; other site 311402012565 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 311402012566 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 311402012567 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 311402012568 hypothetical protein; Reviewed; Region: PRK00024 311402012569 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 311402012570 MPN+ (JAMM) motif; other site 311402012571 Zinc-binding site [ion binding]; other site 311402012572 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 311402012573 active site 311402012574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402012575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402012576 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 311402012577 putative dimerization interface [polypeptide binding]; other site 311402012578 Predicted membrane protein [Function unknown]; Region: COG2855 311402012579 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 311402012580 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 311402012581 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 311402012582 aminotransferase; Validated; Region: PRK09148 311402012583 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402012584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402012585 homodimer interface [polypeptide binding]; other site 311402012586 catalytic residue [active] 311402012587 homoserine dehydrogenase; Provisional; Region: PRK06349 311402012588 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 311402012589 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 311402012590 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 311402012591 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 311402012592 DHH family; Region: DHH; pfam01368 311402012593 DHHA1 domain; Region: DHHA1; pfam02272 311402012594 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402012595 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 311402012596 dimer interface [polypeptide binding]; other site 311402012597 active site 311402012598 metal binding site [ion binding]; metal-binding site 311402012599 glutathione binding site [chemical binding]; other site 311402012600 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 311402012601 DNA-binding site [nucleotide binding]; DNA binding site 311402012602 RNA-binding motif; other site 311402012603 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 311402012604 DNA-binding site [nucleotide binding]; DNA binding site 311402012605 RNA-binding motif; other site 311402012606 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 311402012607 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 311402012608 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 311402012609 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 311402012610 active site 311402012611 Int/Topo IB signature motif; other site 311402012612 catalytic residues [active] 311402012613 DNA binding site [nucleotide binding] 311402012614 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 311402012615 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 311402012616 putative active site [active] 311402012617 putative PHP Thumb interface [polypeptide binding]; other site 311402012618 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 311402012619 generic binding surface II; other site 311402012620 generic binding surface I; other site 311402012621 DNA Polymerase Y-family; Region: PolY_like; cd03468 311402012622 active site 311402012623 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 311402012624 DNA binding site [nucleotide binding] 311402012625 Uncharacterized conserved protein [Function unknown]; Region: COG4544 311402012626 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 311402012627 BRO family, N-terminal domain; Region: Bro-N; cl10591 311402012628 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 311402012629 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 311402012630 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 311402012631 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 311402012632 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 311402012633 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 311402012634 tandem repeat interface [polypeptide binding]; other site 311402012635 oligomer interface [polypeptide binding]; other site 311402012636 active site residues [active] 311402012637 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 311402012638 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 311402012639 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 311402012640 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 311402012641 Baseplate J-like protein; Region: Baseplate_J; cl01294 311402012642 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 311402012643 Phage tail tube protein FII; Region: Phage_tube; cl01390 311402012644 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 311402012645 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 311402012646 Prophage antirepressor [Transcription]; Region: COG3617 311402012647 BRO family, N-terminal domain; Region: Bro-N; smart01040 311402012648 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 311402012649 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 311402012650 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 311402012651 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 311402012652 catalytic residue [active] 311402012653 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 311402012654 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 311402012655 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 311402012656 generic binding surface II; other site 311402012657 ssDNA binding site; other site 311402012658 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 311402012659 ATP binding site [chemical binding]; other site 311402012660 putative Mg++ binding site [ion binding]; other site 311402012661 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402012662 nucleotide binding region [chemical binding]; other site 311402012663 ATP-binding site [chemical binding]; other site 311402012664 Uncharacterized conserved protein [Function unknown]; Region: COG2938 311402012665 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 311402012666 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 311402012667 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 311402012668 ATP binding site [chemical binding]; other site 311402012669 putative Mg++ binding site [ion binding]; other site 311402012670 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402012671 nucleotide binding region [chemical binding]; other site 311402012672 ATP-binding site [chemical binding]; other site 311402012673 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 311402012674 EamA-like transporter family; Region: EamA; cl17759 311402012675 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 311402012676 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 311402012677 catalytic residues [active] 311402012678 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 311402012679 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 311402012680 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 311402012681 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 311402012682 glutamine synthetase; Provisional; Region: glnA; PRK09469 311402012683 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 311402012684 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 311402012685 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 311402012686 Nitrogen regulatory protein P-II; Region: P-II; smart00938 311402012687 Uncharacterized conserved protein [Function unknown]; Region: COG0062 311402012688 putative carbohydrate kinase; Provisional; Region: PRK10565 311402012689 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 311402012690 putative substrate binding site [chemical binding]; other site 311402012691 putative ATP binding site [chemical binding]; other site 311402012692 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402012693 Coenzyme A binding pocket [chemical binding]; other site 311402012694 Protein of unknown function DUF72; Region: DUF72; pfam01904 311402012695 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 311402012696 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 311402012697 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 311402012698 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 311402012699 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 311402012700 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 311402012701 dimer interface [polypeptide binding]; other site 311402012702 ssDNA binding site [nucleotide binding]; other site 311402012703 tetramer (dimer of dimers) interface [polypeptide binding]; other site 311402012704 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 311402012705 DNA gyrase subunit A; Validated; Region: PRK05560 311402012706 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 311402012707 CAP-like domain; other site 311402012708 active site 311402012709 primary dimer interface [polypeptide binding]; other site 311402012710 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311402012711 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311402012712 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311402012713 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311402012714 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 311402012715 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 311402012716 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 311402012717 metal-binding site [ion binding] 311402012718 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 311402012719 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 311402012720 metal-binding site [ion binding] 311402012721 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 311402012722 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402012723 motif II; other site 311402012724 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 311402012725 4Fe-4S binding domain; Region: Fer4_5; pfam12801 311402012726 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 311402012727 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 311402012728 FixH; Region: FixH; pfam05751 311402012729 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 311402012730 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 311402012731 metal-binding site [ion binding] 311402012732 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 311402012733 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 311402012734 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 311402012735 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 311402012736 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 311402012737 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 311402012738 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 311402012739 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 311402012740 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402012741 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402012742 DNA binding site [nucleotide binding] 311402012743 domain linker motif; other site 311402012744 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 311402012745 ligand binding site [chemical binding]; other site 311402012746 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402012747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402012748 dimer interface [polypeptide binding]; other site 311402012749 conserved gate region; other site 311402012750 ABC-ATPase subunit interface; other site 311402012751 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402012752 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402012753 dimer interface [polypeptide binding]; other site 311402012754 conserved gate region; other site 311402012755 putative PBP binding loops; other site 311402012756 ABC-ATPase subunit interface; other site 311402012757 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 311402012758 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402012759 Walker A/P-loop; other site 311402012760 ATP binding site [chemical binding]; other site 311402012761 Q-loop/lid; other site 311402012762 ABC transporter signature motif; other site 311402012763 Walker B; other site 311402012764 D-loop; other site 311402012765 H-loop/switch region; other site 311402012766 TOBE domain; Region: TOBE_2; pfam08402 311402012767 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 311402012768 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 311402012769 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 311402012770 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402012771 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402012772 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402012773 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402012774 active site 311402012775 catalytic tetrad [active] 311402012776 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 311402012777 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 311402012778 inhibitor binding site; inhibition site 311402012779 active site 311402012780 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402012781 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402012782 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 311402012783 TMAO/DMSO reductase; Reviewed; Region: PRK05363 311402012784 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 311402012785 Moco binding site; other site 311402012786 metal coordination site [ion binding]; other site 311402012787 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 311402012788 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 311402012789 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402012790 adenylosuccinate lyase; Provisional; Region: PRK07492 311402012791 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 311402012792 tetramer interface [polypeptide binding]; other site 311402012793 active site 311402012794 Predicted secreted protein (DUF2259); Region: DUF2259; pfam10016 311402012795 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 311402012796 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 311402012797 substrate binding site [chemical binding]; other site 311402012798 hexamer interface [polypeptide binding]; other site 311402012799 metal binding site [ion binding]; metal-binding site 311402012800 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 311402012801 classical (c) SDRs; Region: SDR_c; cd05233 311402012802 NAD(P) binding site [chemical binding]; other site 311402012803 active site 311402012804 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 311402012805 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 311402012806 ligand binding site [chemical binding]; other site 311402012807 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 311402012808 TfoX N-terminal domain; Region: TfoX_N; pfam04993 311402012809 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 311402012810 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 311402012811 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 311402012812 nudix motif; other site 311402012813 helicase 45; Provisional; Region: PTZ00424 311402012814 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 311402012815 ATP binding site [chemical binding]; other site 311402012816 Mg++ binding site [ion binding]; other site 311402012817 motif III; other site 311402012818 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402012819 nucleotide binding region [chemical binding]; other site 311402012820 ATP-binding site [chemical binding]; other site 311402012821 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402012822 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 311402012823 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 311402012824 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 311402012825 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402012826 catalytic residue [active] 311402012827 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 311402012828 putative ABC transporter; Region: ycf24; CHL00085 311402012829 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 311402012830 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 311402012831 Walker A/P-loop; other site 311402012832 ATP binding site [chemical binding]; other site 311402012833 Q-loop/lid; other site 311402012834 ABC transporter signature motif; other site 311402012835 Walker B; other site 311402012836 D-loop; other site 311402012837 H-loop/switch region; other site 311402012838 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 311402012839 FeS assembly protein SufD; Region: sufD; TIGR01981 311402012840 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 311402012841 dimer interface [polypeptide binding]; other site 311402012842 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402012843 metal binding site [ion binding]; metal-binding site 311402012844 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 311402012845 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 311402012846 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402012847 catalytic residue [active] 311402012848 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 311402012849 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 311402012850 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 311402012851 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 311402012852 active site 311402012853 (T/H)XGH motif; other site 311402012854 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 311402012855 active site 311402012856 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 311402012857 active site 311402012858 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 311402012859 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 311402012860 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 311402012861 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 311402012862 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 311402012863 putative phosphoesterase; Region: acc_ester; TIGR03729 311402012864 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 311402012865 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 311402012866 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 311402012867 XdhC Rossmann domain; Region: XdhC_C; pfam13478 311402012868 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 311402012869 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 311402012870 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 311402012871 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 311402012872 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 311402012873 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 311402012874 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402012875 catalytic loop [active] 311402012876 iron binding site [ion binding]; other site 311402012877 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 311402012878 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402012879 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 311402012880 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402012881 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311402012882 putative active site [active] 311402012883 heme pocket [chemical binding]; other site 311402012884 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311402012885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402012886 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402012887 dimer interface [polypeptide binding]; other site 311402012888 phosphorylation site [posttranslational modification] 311402012889 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402012890 ATP binding site [chemical binding]; other site 311402012891 Mg2+ binding site [ion binding]; other site 311402012892 G-X-G motif; other site 311402012893 Response regulator receiver domain; Region: Response_reg; pfam00072 311402012894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402012895 active site 311402012896 phosphorylation site [posttranslational modification] 311402012897 intermolecular recognition site; other site 311402012898 dimerization interface [polypeptide binding]; other site 311402012899 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 311402012900 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 311402012901 catalytic core [active] 311402012902 YcjX-like family, DUF463; Region: DUF463; pfam04317 311402012903 Predicted membrane protein [Function unknown]; Region: COG3768 311402012904 Domain of unknown function (DUF697); Region: DUF697; cl12064 311402012905 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 311402012906 agmatinase; Region: agmatinase; TIGR01230 311402012907 oligomer interface [polypeptide binding]; other site 311402012908 putative active site [active] 311402012909 Mn binding site [ion binding]; other site 311402012910 hypothetical protein; Provisional; Region: PRK07550 311402012911 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402012912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402012913 homodimer interface [polypeptide binding]; other site 311402012914 catalytic residue [active] 311402012915 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 311402012916 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 311402012917 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402012918 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 311402012919 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 311402012920 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 311402012921 trigger factor; Provisional; Region: tig; PRK01490 311402012922 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 311402012923 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 311402012924 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 311402012925 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 311402012926 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 311402012927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 311402012928 MOSC domain; Region: MOSC; pfam03473 311402012929 recombination factor protein RarA; Reviewed; Region: PRK13342 311402012930 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402012931 Walker A motif; other site 311402012932 ATP binding site [chemical binding]; other site 311402012933 Walker B motif; other site 311402012934 arginine finger; other site 311402012935 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 311402012936 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 311402012937 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 311402012938 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 311402012939 protein binding site [polypeptide binding]; other site 311402012940 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 311402012941 protein binding site [polypeptide binding]; other site 311402012942 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 311402012943 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 311402012944 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 311402012945 active site 311402012946 homodimer interface [polypeptide binding]; other site 311402012947 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 311402012948 dimerization interface [polypeptide binding]; other site 311402012949 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 311402012950 mannose binding site [chemical binding]; other site 311402012951 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 311402012952 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 311402012953 active site 311402012954 metal binding site [ion binding]; metal-binding site 311402012955 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 311402012956 Transcriptional activator HlyU; Region: HlyU; pfam10115 311402012957 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 311402012958 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 311402012959 active site 311402012960 threonine dehydratase; Validated; Region: PRK08639 311402012961 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 311402012962 tetramer interface [polypeptide binding]; other site 311402012963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402012964 catalytic residue [active] 311402012965 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 311402012966 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 311402012967 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 311402012968 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402012969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402012970 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402012971 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402012972 Walker A/P-loop; other site 311402012973 ATP binding site [chemical binding]; other site 311402012974 Q-loop/lid; other site 311402012975 ABC transporter signature motif; other site 311402012976 Walker B; other site 311402012977 D-loop; other site 311402012978 H-loop/switch region; other site 311402012979 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 311402012980 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 311402012981 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 311402012982 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 311402012983 urea carboxylase; Region: urea_carbox; TIGR02712 311402012984 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402012985 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311402012986 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 311402012987 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 311402012988 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 311402012989 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402012990 carboxyltransferase (CT) interaction site; other site 311402012991 biotinylation site [posttranslational modification]; other site 311402012992 Serine hydrolase; Region: Ser_hydrolase; pfam06821 311402012993 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402012994 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311402012995 EamA-like transporter family; Region: EamA; pfam00892 311402012996 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 311402012997 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 311402012998 substrate binding site [chemical binding]; other site 311402012999 catalytic Zn binding site [ion binding]; other site 311402013000 NAD binding site [chemical binding]; other site 311402013001 structural Zn binding site [ion binding]; other site 311402013002 dimer interface [polypeptide binding]; other site 311402013003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402013004 Coenzyme A binding pocket [chemical binding]; other site 311402013005 hypothetical protein; Validated; Region: PRK00124 311402013006 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 311402013007 S-formylglutathione hydrolase; Region: PLN02442 311402013008 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 311402013009 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 311402013010 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 311402013011 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 311402013012 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 311402013013 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 311402013014 active site 311402013015 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 311402013016 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 311402013017 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 311402013018 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 311402013019 trimer interface [polypeptide binding]; other site 311402013020 active site 311402013021 UDP-GlcNAc binding site [chemical binding]; other site 311402013022 lipid binding site [chemical binding]; lipid-binding site 311402013023 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 311402013024 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 311402013025 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 311402013026 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 311402013027 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 311402013028 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 311402013029 Surface antigen; Region: Bac_surface_Ag; pfam01103 311402013030 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 311402013031 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 311402013032 active site 311402013033 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 311402013034 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 311402013035 putative substrate binding region [chemical binding]; other site 311402013036 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 311402013037 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 311402013038 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 311402013039 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 311402013040 catalytic residue [active] 311402013041 putative FPP diphosphate binding site; other site 311402013042 putative FPP binding hydrophobic cleft; other site 311402013043 dimer interface [polypeptide binding]; other site 311402013044 putative IPP diphosphate binding site; other site 311402013045 ribosome recycling factor; Reviewed; Region: frr; PRK00083 311402013046 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 311402013047 hinge region; other site 311402013048 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 311402013049 putative nucleotide binding site [chemical binding]; other site 311402013050 uridine monophosphate binding site [chemical binding]; other site 311402013051 homohexameric interface [polypeptide binding]; other site 311402013052 elongation factor Ts; Provisional; Region: tsf; PRK09377 311402013053 UBA/TS-N domain; Region: UBA; pfam00627 311402013054 Elongation factor TS; Region: EF_TS; pfam00889 311402013055 Elongation factor TS; Region: EF_TS; pfam00889 311402013056 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 311402013057 rRNA interaction site [nucleotide binding]; other site 311402013058 S8 interaction site; other site 311402013059 putative laminin-1 binding site; other site 311402013060 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 311402013061 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 311402013062 homotrimer interaction site [polypeptide binding]; other site 311402013063 putative active site [active] 311402013064 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 311402013065 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 311402013066 active site 311402013067 catalytic site [active] 311402013068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 311402013069 Protein of unknown function, DUF482; Region: DUF482; pfam04339 311402013070 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 311402013071 HIT family signature motif; other site 311402013072 catalytic residue [active] 311402013073 AzlC protein; Region: AzlC; pfam03591 311402013074 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 311402013075 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402013076 Walker A motif; other site 311402013077 ATP binding site [chemical binding]; other site 311402013078 Walker B motif; other site 311402013079 arginine finger; other site 311402013080 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402013081 Walker A motif; other site 311402013082 ATP binding site [chemical binding]; other site 311402013083 Walker B motif; other site 311402013084 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 311402013085 Uncharacterized conserved protein [Function unknown]; Region: COG2127 311402013086 Phasin protein; Region: Phasin_2; pfam09361 311402013087 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 311402013088 serine acetyltransferase; Provisional; Region: cysE; PRK11132 311402013089 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 311402013090 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 311402013091 trimer interface [polypeptide binding]; other site 311402013092 active site 311402013093 substrate binding site [chemical binding]; other site 311402013094 CoA binding site [chemical binding]; other site 311402013095 enoyl-CoA hydratase; Provisional; Region: PRK06127 311402013096 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 311402013097 substrate binding site [chemical binding]; other site 311402013098 oxyanion hole (OAH) forming residues; other site 311402013099 trimer interface [polypeptide binding]; other site 311402013100 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 311402013101 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311402013102 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 311402013103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 311402013104 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402013105 cystathionine beta-lyase; Provisional; Region: PRK05967 311402013106 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 311402013107 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402013108 catalytic residue [active] 311402013109 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 311402013110 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402013111 substrate binding pocket [chemical binding]; other site 311402013112 membrane-bound complex binding site; other site 311402013113 hinge residues; other site 311402013114 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 311402013115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 311402013116 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013117 dimer interface [polypeptide binding]; other site 311402013118 conserved gate region; other site 311402013119 putative PBP binding loops; other site 311402013120 ABC-ATPase subunit interface; other site 311402013121 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013122 dimer interface [polypeptide binding]; other site 311402013123 conserved gate region; other site 311402013124 putative PBP binding loops; other site 311402013125 ABC-ATPase subunit interface; other site 311402013126 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 311402013127 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 311402013128 Walker A/P-loop; other site 311402013129 ATP binding site [chemical binding]; other site 311402013130 Q-loop/lid; other site 311402013131 ABC transporter signature motif; other site 311402013132 Walker B; other site 311402013133 D-loop; other site 311402013134 H-loop/switch region; other site 311402013135 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 311402013136 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 311402013137 motif 1; other site 311402013138 active site 311402013139 motif 2; other site 311402013140 motif 3; other site 311402013141 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 311402013142 recombinase A; Provisional; Region: recA; PRK09354 311402013143 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 311402013144 hexamer interface [polypeptide binding]; other site 311402013145 Walker A motif; other site 311402013146 ATP binding site [chemical binding]; other site 311402013147 Walker B motif; other site 311402013148 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402013149 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 311402013150 substrate binding site [chemical binding]; other site 311402013151 ATP binding site [chemical binding]; other site 311402013152 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 311402013153 LexA repressor; Validated; Region: PRK00215 311402013154 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 311402013155 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 311402013156 Catalytic site [active] 311402013157 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 311402013158 Competence protein; Region: Competence; pfam03772 311402013159 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 311402013160 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 311402013161 dimer interface [polypeptide binding]; other site 311402013162 active site 311402013163 citrylCoA binding site [chemical binding]; other site 311402013164 NADH binding [chemical binding]; other site 311402013165 cationic pore residues; other site 311402013166 oxalacetate/citrate binding site [chemical binding]; other site 311402013167 coenzyme A binding site [chemical binding]; other site 311402013168 catalytic triad [active] 311402013169 SurA N-terminal domain; Region: SurA_N_3; cl07813 311402013170 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 311402013171 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 311402013172 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 311402013173 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 311402013174 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 311402013175 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 311402013176 active site 311402013177 ribulose/triose binding site [chemical binding]; other site 311402013178 phosphate binding site [ion binding]; other site 311402013179 substrate (anthranilate) binding pocket [chemical binding]; other site 311402013180 product (indole) binding pocket [chemical binding]; other site 311402013181 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 311402013182 trimer interface [polypeptide binding]; other site 311402013183 dimer interface [polypeptide binding]; other site 311402013184 putative active site [active] 311402013185 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 311402013186 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 311402013187 dimer interface [polypeptide binding]; other site 311402013188 putative functional site; other site 311402013189 putative MPT binding site; other site 311402013190 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 311402013191 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 311402013192 active site 311402013193 cobyric acid synthase; Provisional; Region: PRK00784 311402013194 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 311402013195 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 311402013196 catalytic triad [active] 311402013197 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 311402013198 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 311402013199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013200 dimer interface [polypeptide binding]; other site 311402013201 conserved gate region; other site 311402013202 putative PBP binding loops; other site 311402013203 ABC-ATPase subunit interface; other site 311402013204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402013205 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 311402013206 Walker A/P-loop; other site 311402013207 ATP binding site [chemical binding]; other site 311402013208 Q-loop/lid; other site 311402013209 ABC transporter signature motif; other site 311402013210 Walker B; other site 311402013211 D-loop; other site 311402013212 H-loop/switch region; other site 311402013213 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 311402013214 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 311402013215 Tetratricopeptide repeat; Region: TPR_16; pfam13432 311402013216 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402013217 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 311402013218 Predicted periplasmic protein [Function unknown]; Region: COG3698 311402013219 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 311402013220 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 311402013221 putative active site [active] 311402013222 putative cosubstrate binding site; other site 311402013223 putative substrate binding site [chemical binding]; other site 311402013224 catalytic site [active] 311402013225 Cytochrome P450; Region: p450; pfam00067 311402013226 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 311402013227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402013228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402013229 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402013230 dimerization interface [polypeptide binding]; other site 311402013231 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 311402013232 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 311402013233 conserved cys residue [active] 311402013234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402013235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402013236 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar2; cd08584 311402013237 putative active site [active] 311402013238 catalytic site [active] 311402013239 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 311402013240 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402013241 motif II; other site 311402013242 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 311402013243 Ligand binding site; other site 311402013244 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 311402013245 Ligand binding site; other site 311402013246 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 311402013247 active site 311402013248 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 311402013249 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 311402013250 Catalytic site [active] 311402013251 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 311402013252 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 311402013253 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 311402013254 Transcriptional regulator; Region: Transcrip_reg; cl00361 311402013255 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 311402013256 active site 311402013257 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 311402013258 TSCPD domain; Region: TSCPD; pfam12637 311402013259 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402013260 dimerization interface [polypeptide binding]; other site 311402013261 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402013262 dimer interface [polypeptide binding]; other site 311402013263 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 311402013264 putative CheW interface [polypeptide binding]; other site 311402013265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402013266 active site 311402013267 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 311402013268 Ligand Binding Site [chemical binding]; other site 311402013269 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 311402013270 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 311402013271 putative MPT binding site; other site 311402013272 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 311402013273 dimerization interface [polypeptide binding]; other site 311402013274 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402013275 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402013276 dimer interface [polypeptide binding]; other site 311402013277 putative CheW interface [polypeptide binding]; other site 311402013278 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 311402013279 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 311402013280 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 311402013281 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 311402013282 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 311402013283 Predicted membrane protein [Function unknown]; Region: COG3821 311402013284 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 311402013285 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 311402013286 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 311402013287 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 311402013288 DNA binding residues [nucleotide binding] 311402013289 putative dimer interface [polypeptide binding]; other site 311402013290 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 311402013291 MgtE intracellular N domain; Region: MgtE_N; smart00924 311402013292 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 311402013293 Divalent cation transporter; Region: MgtE; cl00786 311402013294 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 311402013295 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 311402013296 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402013297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402013298 homodimer interface [polypeptide binding]; other site 311402013299 catalytic residue [active] 311402013300 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 311402013301 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311402013302 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 311402013303 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 311402013304 homodimer interface [polypeptide binding]; other site 311402013305 active site 311402013306 SAM binding site [chemical binding]; other site 311402013307 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 311402013308 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 311402013309 CheD chemotactic sensory transduction; Region: CheD; cl00810 311402013310 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 311402013311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402013312 Coenzyme A binding pocket [chemical binding]; other site 311402013313 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 311402013314 active site 311402013315 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 311402013316 active site 311402013317 SAM binding site [chemical binding]; other site 311402013318 homodimer interface [polypeptide binding]; other site 311402013319 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 311402013320 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 311402013321 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 311402013322 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 311402013323 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 311402013324 active site 311402013325 SAM binding site [chemical binding]; other site 311402013326 homodimer interface [polypeptide binding]; other site 311402013327 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 311402013328 active site 311402013329 SAM binding site [chemical binding]; other site 311402013330 homodimer interface [polypeptide binding]; other site 311402013331 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 311402013332 active site 311402013333 putative homodimer interface [polypeptide binding]; other site 311402013334 SAM binding site [chemical binding]; other site 311402013335 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 311402013336 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402013337 S-adenosylmethionine binding site [chemical binding]; other site 311402013338 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 311402013339 Precorrin-8X methylmutase; Region: CbiC; pfam02570 311402013340 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 311402013341 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 311402013342 putative active site [active] 311402013343 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 311402013344 putative active site [active] 311402013345 hypothetical protein; Provisional; Region: PRK10621 311402013346 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 311402013347 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 311402013348 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 311402013349 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 311402013350 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 311402013351 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 311402013352 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 311402013353 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 311402013354 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 311402013355 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 311402013356 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 311402013357 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 311402013358 homotrimer interface [polypeptide binding]; other site 311402013359 Walker A motif; other site 311402013360 GTP binding site [chemical binding]; other site 311402013361 Walker B motif; other site 311402013362 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 311402013363 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 311402013364 Glucose inhibited division protein A; Region: GIDA; pfam01134 311402013365 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 311402013366 substrate binding pocket [chemical binding]; other site 311402013367 substrate-Mg2+ binding site; other site 311402013368 aspartate-rich region 1; other site 311402013369 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 311402013370 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 311402013371 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 311402013372 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 311402013373 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 311402013374 Protein export membrane protein; Region: SecD_SecF; pfam02355 311402013375 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 311402013376 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 311402013377 Protein of unknown function (DUF815); Region: DUF815; pfam05673 311402013378 Walker A motif; other site 311402013379 ATP binding site [chemical binding]; other site 311402013380 Walker B motif; other site 311402013381 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 311402013382 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 311402013383 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 311402013384 Peptidase family M23; Region: Peptidase_M23; pfam01551 311402013385 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 311402013386 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 311402013387 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402013388 S-adenosylmethionine binding site [chemical binding]; other site 311402013389 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 311402013390 seryl-tRNA synthetase; Provisional; Region: PRK05431 311402013391 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 311402013392 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 311402013393 dimer interface [polypeptide binding]; other site 311402013394 active site 311402013395 motif 1; other site 311402013396 motif 2; other site 311402013397 motif 3; other site 311402013398 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 311402013399 sec-independent translocase; Provisional; Region: PRK00708 311402013400 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 311402013401 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 311402013402 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 311402013403 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 311402013404 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 311402013405 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 311402013406 Sporulation related domain; Region: SPOR; pfam05036 311402013407 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 311402013408 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 311402013409 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 311402013410 active site 311402013411 HIGH motif; other site 311402013412 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 311402013413 KMSK motif region; other site 311402013414 tRNA binding surface [nucleotide binding]; other site 311402013415 DALR anticodon binding domain; Region: DALR_1; smart00836 311402013416 anticodon binding site; other site 311402013417 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 311402013418 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311402013419 Zn2+ binding site [ion binding]; other site 311402013420 Mg2+ binding site [ion binding]; other site 311402013421 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 311402013422 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 311402013423 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 311402013424 putative catalytic site [active] 311402013425 putative phosphate binding site [ion binding]; other site 311402013426 active site 311402013427 metal binding site A [ion binding]; metal-binding site 311402013428 DNA binding site [nucleotide binding] 311402013429 putative AP binding site [nucleotide binding]; other site 311402013430 putative metal binding site B [ion binding]; other site 311402013431 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 311402013432 Sel1-like repeats; Region: SEL1; smart00671 311402013433 Sel1-like repeats; Region: SEL1; smart00671 311402013434 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 311402013435 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 311402013436 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 311402013437 HIGH motif; other site 311402013438 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 311402013439 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 311402013440 active site 311402013441 KMSKS motif; other site 311402013442 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 311402013443 tRNA binding surface [nucleotide binding]; other site 311402013444 anticodon binding site; other site 311402013445 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 311402013446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 311402013447 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 311402013448 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 311402013449 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402013450 S-adenosylmethionine binding site [chemical binding]; other site 311402013451 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 311402013452 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 311402013453 active site 311402013454 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 311402013455 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 311402013456 active site 311402013457 catalytic site [active] 311402013458 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402013459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013460 dimer interface [polypeptide binding]; other site 311402013461 conserved gate region; other site 311402013462 ABC-ATPase subunit interface; other site 311402013463 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402013464 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013465 dimer interface [polypeptide binding]; other site 311402013466 conserved gate region; other site 311402013467 putative PBP binding loops; other site 311402013468 ABC-ATPase subunit interface; other site 311402013469 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 311402013470 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402013471 Walker A/P-loop; other site 311402013472 ATP binding site [chemical binding]; other site 311402013473 Q-loop/lid; other site 311402013474 ABC transporter signature motif; other site 311402013475 Walker B; other site 311402013476 D-loop; other site 311402013477 H-loop/switch region; other site 311402013478 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402013479 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 311402013480 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402013481 Walker A/P-loop; other site 311402013482 ATP binding site [chemical binding]; other site 311402013483 Q-loop/lid; other site 311402013484 ABC transporter signature motif; other site 311402013485 Walker B; other site 311402013486 D-loop; other site 311402013487 H-loop/switch region; other site 311402013488 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402013489 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402013490 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_10; cd08515 311402013491 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 311402013492 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 311402013493 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 311402013494 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 311402013495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402013496 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 311402013497 putative dimerization interface [polypeptide binding]; other site 311402013498 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 311402013499 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 311402013500 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402013501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402013502 Walker A/P-loop; other site 311402013503 ATP binding site [chemical binding]; other site 311402013504 Q-loop/lid; other site 311402013505 ABC transporter signature motif; other site 311402013506 Walker B; other site 311402013507 D-loop; other site 311402013508 H-loop/switch region; other site 311402013509 TOBE domain; Region: TOBE_2; pfam08402 311402013510 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 311402013511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013512 dimer interface [polypeptide binding]; other site 311402013513 conserved gate region; other site 311402013514 putative PBP binding loops; other site 311402013515 ABC-ATPase subunit interface; other site 311402013516 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402013517 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013518 dimer interface [polypeptide binding]; other site 311402013519 conserved gate region; other site 311402013520 putative PBP binding loops; other site 311402013521 ABC-ATPase subunit interface; other site 311402013522 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402013523 hydroxyglutarate oxidase; Provisional; Region: PRK11728 311402013524 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 311402013525 catalytic loop [active] 311402013526 iron binding site [ion binding]; other site 311402013527 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 311402013528 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 311402013529 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 311402013530 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 311402013531 Predicted kinase [General function prediction only]; Region: COG0645 311402013532 AAA domain; Region: AAA_17; pfam13207 311402013533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 311402013534 Transposase; Region: DEDD_Tnp_IS110; pfam01548 311402013535 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 311402013536 Integrase core domain; Region: rve_3; pfam13683 311402013537 ABC-2 type transporter; Region: ABC2_membrane; cl17235 311402013538 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 311402013539 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 311402013540 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 311402013541 Walker A/P-loop; other site 311402013542 ATP binding site [chemical binding]; other site 311402013543 Q-loop/lid; other site 311402013544 ABC transporter signature motif; other site 311402013545 Walker B; other site 311402013546 D-loop; other site 311402013547 H-loop/switch region; other site 311402013548 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 311402013549 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402013550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 311402013551 active site 311402013552 phosphorylation site [posttranslational modification] 311402013553 intermolecular recognition site; other site 311402013554 dimerization interface [polypeptide binding]; other site 311402013555 Response regulator receiver domain; Region: Response_reg; pfam00072 311402013556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402013557 active site 311402013558 phosphorylation site [posttranslational modification] 311402013559 intermolecular recognition site; other site 311402013560 dimerization interface [polypeptide binding]; other site 311402013561 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402013562 hydroxyglutarate oxidase; Provisional; Region: PRK11728 311402013563 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 311402013564 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 311402013565 Methyltransferase domain; Region: Methyltransf_31; pfam13847 311402013566 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402013567 S-adenosylmethionine binding site [chemical binding]; other site 311402013568 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 311402013569 Mechanosensitive ion channel; Region: MS_channel; pfam00924 311402013570 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 311402013571 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 311402013572 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 311402013573 putative hemin binding site; other site 311402013574 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402013575 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 311402013576 ABC-ATPase subunit interface; other site 311402013577 dimer interface [polypeptide binding]; other site 311402013578 putative PBP binding regions; other site 311402013579 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 311402013580 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 311402013581 Walker A/P-loop; other site 311402013582 ATP binding site [chemical binding]; other site 311402013583 Q-loop/lid; other site 311402013584 ABC transporter signature motif; other site 311402013585 Walker B; other site 311402013586 D-loop; other site 311402013587 H-loop/switch region; other site 311402013588 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402013589 Methyltransferase domain; Region: Methyltransf_23; pfam13489 311402013590 Catalytic domain of uncharacterized hypothetical proteins similar to eukaryotic phosphatidylinositol-specific phospholipase C, X domain containing proteins; Region: PI-PLCXDc_like_1; cd08620 311402013591 putative active site [active] 311402013592 catalytic site [active] 311402013593 Phosphoesterase family; Region: Phosphoesterase; pfam04185 311402013594 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 311402013595 mismatch recognition site; other site 311402013596 additional DNA contacts [nucleotide binding]; other site 311402013597 active site 311402013598 zinc binding site [ion binding]; other site 311402013599 DNA intercalation site [nucleotide binding]; other site 311402013600 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 311402013601 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 311402013602 cofactor binding site; other site 311402013603 DNA binding site [nucleotide binding] 311402013604 substrate interaction site [chemical binding]; other site 311402013605 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 311402013606 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 311402013607 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 311402013608 ATP binding site [chemical binding]; other site 311402013609 Mg2+ binding site [ion binding]; other site 311402013610 G-X-G motif; other site 311402013611 Z1 domain; Region: Z1; pfam10593 311402013612 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 311402013613 AIPR protein; Region: AIPR; pfam10592 311402013614 Caspase domain; Region: Peptidase_C14; pfam00656 311402013615 active site 311402013616 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402013617 Transposase; Region: HTH_Tnp_1; pfam01527 311402013618 putative transposase OrfB; Reviewed; Region: PHA02517 311402013619 HTH-like domain; Region: HTH_21; pfam13276 311402013620 Integrase core domain; Region: rve; pfam00665 311402013621 Integrase core domain; Region: rve_2; pfam13333 311402013622 galactonate dehydratase; Provisional; Region: PRK14017 311402013623 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 311402013624 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 311402013625 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 311402013626 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 311402013627 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 311402013628 Transcription antiterminator [Transcription]; Region: NusG; COG0250 311402013629 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 311402013630 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 311402013631 heterodimer interface [polypeptide binding]; other site 311402013632 homodimer interface [polypeptide binding]; other site 311402013633 Helix-turn-helix domain; Region: HTH_36; pfam13730 311402013634 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402013635 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402013636 non-specific DNA binding site [nucleotide binding]; other site 311402013637 salt bridge; other site 311402013638 sequence-specific DNA binding site [nucleotide binding]; other site 311402013639 Predicted transcriptional regulator [Transcription]; Region: COG2932 311402013640 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 311402013641 Catalytic site [active] 311402013642 HNH endonuclease; Region: HNH_3; pfam13392 311402013643 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 311402013644 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 311402013645 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 311402013646 active site 311402013647 catalytic residues [active] 311402013648 DNA binding site [nucleotide binding] 311402013649 Int/Topo IB signature motif; other site 311402013650 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 311402013651 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 311402013652 nudix motif; other site 311402013653 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402013654 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311402013655 putative active site [active] 311402013656 heme pocket [chemical binding]; other site 311402013657 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402013658 putative active site [active] 311402013659 heme pocket [chemical binding]; other site 311402013660 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402013661 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402013662 dimer interface [polypeptide binding]; other site 311402013663 putative CheW interface [polypeptide binding]; other site 311402013664 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 311402013665 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 311402013666 DNA binding residues [nucleotide binding] 311402013667 B12 binding domain; Region: B12-binding_2; pfam02607 311402013668 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 311402013669 B12 binding site [chemical binding]; other site 311402013670 ketol-acid reductoisomerase; Provisional; Region: PRK05479 311402013671 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 311402013672 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 311402013673 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402013674 methionine sulfoxide reductase A; Provisional; Region: PRK14054 311402013675 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402013676 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402013677 putative DNA binding site [nucleotide binding]; other site 311402013678 putative Zn2+ binding site [ion binding]; other site 311402013679 AsnC family; Region: AsnC_trans_reg; pfam01037 311402013680 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 311402013681 aspartate racemase; Region: asp_race; TIGR00035 311402013682 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402013683 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402013684 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 311402013685 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402013686 putative substrate translocation pore; other site 311402013687 PAS domain; Region: PAS_9; pfam13426 311402013688 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402013689 PAS domain; Region: PAS_9; pfam13426 311402013690 putative active site [active] 311402013691 heme pocket [chemical binding]; other site 311402013692 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402013693 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402013694 dimer interface [polypeptide binding]; other site 311402013695 putative CheW interface [polypeptide binding]; other site 311402013696 Predicted transcriptional regulators [Transcription]; Region: COG1733 311402013697 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 311402013698 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 311402013699 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 311402013700 NADP binding site [chemical binding]; other site 311402013701 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 311402013702 active site 311402013703 hydrophilic channel; other site 311402013704 dimerization interface [polypeptide binding]; other site 311402013705 catalytic residues [active] 311402013706 active site lid [active] 311402013707 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 311402013708 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 311402013709 DNA binding residues [nucleotide binding] 311402013710 dimer interface [polypeptide binding]; other site 311402013711 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 311402013712 DNA binding residues [nucleotide binding] 311402013713 dimerization interface [polypeptide binding]; other site 311402013714 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 311402013715 AAA domain; Region: AAA_30; pfam13604 311402013716 Family description; Region: UvrD_C_2; pfam13538 311402013717 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402013718 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402013719 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402013720 active site 311402013721 catalytic tetrad [active] 311402013722 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 311402013723 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 311402013724 putative valine binding site [chemical binding]; other site 311402013725 dimer interface [polypeptide binding]; other site 311402013726 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 311402013727 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 311402013728 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 311402013729 PYR/PP interface [polypeptide binding]; other site 311402013730 dimer interface [polypeptide binding]; other site 311402013731 TPP binding site [chemical binding]; other site 311402013732 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 311402013733 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 311402013734 TPP-binding site [chemical binding]; other site 311402013735 dimer interface [polypeptide binding]; other site 311402013736 HerA helicase [Replication, recombination, and repair]; Region: COG0433 311402013737 Domain of unknown function DUF87; Region: DUF87; pfam01935 311402013738 Rhomboid family; Region: Rhomboid; cl11446 311402013739 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 311402013740 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 311402013741 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 311402013742 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 311402013743 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402013744 motif II; other site 311402013745 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402013746 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402013747 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 311402013748 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 311402013749 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 311402013750 protein binding site [polypeptide binding]; other site 311402013751 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 311402013752 protein binding site [polypeptide binding]; other site 311402013753 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 311402013754 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 311402013755 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 311402013756 HflK protein; Region: hflK; TIGR01933 311402013757 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 311402013758 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 311402013759 folate binding site [chemical binding]; other site 311402013760 NADP+ binding site [chemical binding]; other site 311402013761 Predicted membrane protein [Function unknown]; Region: COG2259 311402013762 thymidylate synthase; Reviewed; Region: thyA; PRK01827 311402013763 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 311402013764 dimerization interface [polypeptide binding]; other site 311402013765 active site 311402013766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 311402013767 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 311402013768 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 311402013769 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 311402013770 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 311402013771 FAD binding domain; Region: FAD_binding_4; pfam01565 311402013772 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 311402013773 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 311402013774 Walker A/P-loop; other site 311402013775 ATP binding site [chemical binding]; other site 311402013776 Q-loop/lid; other site 311402013777 ABC transporter signature motif; other site 311402013778 Walker B; other site 311402013779 D-loop; other site 311402013780 H-loop/switch region; other site 311402013781 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 311402013782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013783 dimer interface [polypeptide binding]; other site 311402013784 conserved gate region; other site 311402013785 putative PBP binding loops; other site 311402013786 ABC-ATPase subunit interface; other site 311402013787 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 311402013788 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402013789 dimer interface [polypeptide binding]; other site 311402013790 conserved gate region; other site 311402013791 putative PBP binding loops; other site 311402013792 ABC-ATPase subunit interface; other site 311402013793 PBP superfamily domain; Region: PBP_like_2; cl17296 311402013794 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 311402013795 Part of AAA domain; Region: AAA_19; pfam13245 311402013796 Family description; Region: UvrD_C_2; pfam13538 311402013797 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 311402013798 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 311402013799 oligomeric interface; other site 311402013800 putative active site [active] 311402013801 homodimer interface [polypeptide binding]; other site 311402013802 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 311402013803 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 311402013804 Trp docking motif [polypeptide binding]; other site 311402013805 putative active site [active] 311402013806 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 311402013807 Isochorismatase family; Region: Isochorismatase; pfam00857 311402013808 catalytic triad [active] 311402013809 metal binding site [ion binding]; metal-binding site 311402013810 conserved cis-peptide bond; other site 311402013811 pantoate--beta-alanine ligase; Region: panC; TIGR00018 311402013812 Pantoate-beta-alanine ligase; Region: PanC; cd00560 311402013813 active site 311402013814 ATP-binding site [chemical binding]; other site 311402013815 pantoate-binding site; other site 311402013816 HXXH motif; other site 311402013817 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 311402013818 oligomerization interface [polypeptide binding]; other site 311402013819 active site 311402013820 metal binding site [ion binding]; metal-binding site 311402013821 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 311402013822 L-aspartate oxidase; Provisional; Region: PRK06175 311402013823 L-aspartate oxidase; Provisional; Region: PRK09077 311402013824 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 311402013825 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 311402013826 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 311402013827 Predicted membrane protein [Function unknown]; Region: COG4541 311402013828 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 311402013829 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 311402013830 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 311402013831 active site 311402013832 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 311402013833 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402013834 S-adenosylmethionine binding site [chemical binding]; other site 311402013835 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 311402013836 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 311402013837 Cu(I) binding site [ion binding]; other site 311402013838 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 311402013839 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402013840 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402013841 dimer interface [polypeptide binding]; other site 311402013842 putative CheW interface [polypeptide binding]; other site 311402013843 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 311402013844 putative CheA interaction surface; other site 311402013845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 311402013846 CreA protein; Region: CreA; pfam05981 311402013847 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 311402013848 active site 311402013849 catalytic site [active] 311402013850 substrate binding site [chemical binding]; other site 311402013851 Predicted esterase [General function prediction only]; Region: COG0400 311402013852 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 311402013853 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402013854 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402013855 dimer interface [polypeptide binding]; other site 311402013856 putative CheW interface [polypeptide binding]; other site 311402013857 putative acetyltransferase YhhY; Provisional; Region: PRK10140 311402013858 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402013859 Coenzyme A binding pocket [chemical binding]; other site 311402013860 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 311402013861 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 311402013862 ATP binding site [chemical binding]; other site 311402013863 Mg++ binding site [ion binding]; other site 311402013864 motif III; other site 311402013865 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402013866 nucleotide binding region [chemical binding]; other site 311402013867 ATP-binding site [chemical binding]; other site 311402013868 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 311402013869 RNA binding site [nucleotide binding]; other site 311402013870 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 311402013871 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402013872 MarR family; Region: MarR_2; pfam12802 311402013873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402013874 Coenzyme A binding pocket [chemical binding]; other site 311402013875 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 311402013876 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 311402013877 nucleotide binding pocket [chemical binding]; other site 311402013878 K-X-D-G motif; other site 311402013879 catalytic site [active] 311402013880 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 311402013881 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 311402013882 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 311402013883 Dimer interface [polypeptide binding]; other site 311402013884 BRCT sequence motif; other site 311402013885 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 311402013886 putative catalytic site [active] 311402013887 putative metal binding site [ion binding]; other site 311402013888 putative phosphate binding site [ion binding]; other site 311402013889 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 311402013890 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 311402013891 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 311402013892 putative active site [active] 311402013893 catalytic site [active] 311402013894 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 311402013895 putative active site [active] 311402013896 catalytic site [active] 311402013897 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 311402013898 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 311402013899 Walker A/P-loop; other site 311402013900 ATP binding site [chemical binding]; other site 311402013901 Q-loop/lid; other site 311402013902 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 311402013903 ABC transporter signature motif; other site 311402013904 Walker B; other site 311402013905 D-loop; other site 311402013906 H-loop/switch region; other site 311402013907 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 311402013908 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 311402013909 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 311402013910 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 311402013911 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 311402013912 nucleotide binding site [chemical binding]; other site 311402013913 SulA interaction site; other site 311402013914 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 311402013915 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 311402013916 Cell division protein FtsA; Region: FtsA; smart00842 311402013917 Cell division protein FtsA; Region: FtsA; pfam14450 311402013918 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 311402013919 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 311402013920 Cell division protein FtsQ; Region: FtsQ; pfam03799 311402013921 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 311402013922 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 311402013923 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311402013924 metabolite-proton symporter; Region: 2A0106; TIGR00883 311402013925 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402013926 putative substrate translocation pore; other site 311402013927 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 311402013928 FAD binding domain; Region: FAD_binding_4; pfam01565 311402013929 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 311402013930 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 311402013931 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 311402013932 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 311402013933 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 311402013934 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 311402013935 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 311402013936 homodimer interface [polypeptide binding]; other site 311402013937 active site 311402013938 cell division protein FtsW; Region: ftsW; TIGR02614 311402013939 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 311402013940 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 311402013941 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 311402013942 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 311402013943 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 311402013944 Mg++ binding site [ion binding]; other site 311402013945 putative catalytic motif [active] 311402013946 putative substrate binding site [chemical binding]; other site 311402013947 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 311402013948 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 311402013949 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 311402013950 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 311402013951 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 311402013952 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 311402013953 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 311402013954 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 311402013955 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 311402013956 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 311402013957 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 311402013958 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 311402013959 MraW methylase family; Region: Methyltransf_5; cl17771 311402013960 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 311402013961 cell division protein MraZ; Reviewed; Region: PRK00326 311402013962 MraZ protein; Region: MraZ; pfam02381 311402013963 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402013964 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 311402013965 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402013966 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402013967 catalytic residue [active] 311402013968 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 311402013969 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 311402013970 amidase catalytic site [active] 311402013971 Zn binding residues [ion binding]; other site 311402013972 substrate binding site [chemical binding]; other site 311402013973 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402013974 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 311402013975 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 311402013976 putative metal binding site [ion binding]; other site 311402013977 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 311402013978 HSP70 interaction site [polypeptide binding]; other site 311402013979 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 311402013980 6-phosphofructokinase [Carbohydrate transport and metabolism]; Region: PfkA; COG0205 311402013981 active site 311402013982 ADP/pyrophosphate binding site [chemical binding]; other site 311402013983 dimerization interface [polypeptide binding]; other site 311402013984 allosteric effector site; other site 311402013985 fructose-1,6-bisphosphate binding site; other site 311402013986 LysE type translocator; Region: LysE; cl00565 311402013987 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 311402013988 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402013989 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402013990 catalytic residue [active] 311402013991 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 311402013992 Beta-lactamase; Region: Beta-lactamase; pfam00144 311402013993 S-adenosylmethionine:diacylglycerol 3-amino-3-carboxypropyl transferase [Lipid metabolism]; Region: BtaA; COG5379 311402013994 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402013995 S-adenosylmethionine binding site [chemical binding]; other site 311402013996 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 311402013997 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 311402013998 active site 311402013999 lytic murein transglycosylase; Region: MltB_2; TIGR02283 311402014000 murein hydrolase B; Provisional; Region: PRK10760; cl17906 311402014001 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402014002 Isochorismatase family; Region: Isochorismatase; pfam00857 311402014003 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 311402014004 catalytic triad [active] 311402014005 conserved cis-peptide bond; other site 311402014006 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 311402014007 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 311402014008 conserved cys residue [active] 311402014009 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 311402014010 FAD binding site [chemical binding]; other site 311402014011 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402014012 dimerization interface [polypeptide binding]; other site 311402014013 putative DNA binding site [nucleotide binding]; other site 311402014014 putative Zn2+ binding site [ion binding]; other site 311402014015 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402014016 S-adenosylmethionine binding site [chemical binding]; other site 311402014017 Nitrate and nitrite sensing; Region: NIT; pfam08376 311402014018 HAMP domain; Region: HAMP; pfam00672 311402014019 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402014020 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402014021 dimer interface [polypeptide binding]; other site 311402014022 putative CheW interface [polypeptide binding]; other site 311402014023 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402014024 dimerization interface [polypeptide binding]; other site 311402014025 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402014026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402014027 dimer interface [polypeptide binding]; other site 311402014028 putative CheW interface [polypeptide binding]; other site 311402014029 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 311402014030 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402014031 Walker A/P-loop; other site 311402014032 ATP binding site [chemical binding]; other site 311402014033 Q-loop/lid; other site 311402014034 ABC transporter signature motif; other site 311402014035 Walker B; other site 311402014036 D-loop; other site 311402014037 H-loop/switch region; other site 311402014038 ABC transporter; Region: ABC_tran_2; pfam12848 311402014039 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402014040 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 311402014041 B1 nucleotide binding pocket [chemical binding]; other site 311402014042 B2 nucleotide binding pocket [chemical binding]; other site 311402014043 CAS motifs; other site 311402014044 active site 311402014045 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 311402014046 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311402014047 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311402014048 EamA-like transporter family; Region: EamA; pfam00892 311402014049 thiamine pyrophosphate protein; Validated; Region: PRK08199 311402014050 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 311402014051 PYR/PP interface [polypeptide binding]; other site 311402014052 dimer interface [polypeptide binding]; other site 311402014053 TPP binding site [chemical binding]; other site 311402014054 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 311402014055 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 311402014056 TPP-binding site [chemical binding]; other site 311402014057 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402014058 MarR family; Region: MarR_2; pfam12802 311402014059 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 311402014060 Uncharacterized conserved protein [Function unknown]; Region: COG2128 311402014061 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 311402014062 homotrimer interaction site [polypeptide binding]; other site 311402014063 putative active site [active] 311402014064 Putative phosphatase (DUF442); Region: DUF442; cl17385 311402014065 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 311402014066 active site 311402014067 catalytic residues [active] 311402014068 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402014069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 311402014070 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 311402014071 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 311402014072 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402014073 P-loop; other site 311402014074 Magnesium ion binding site [ion binding]; other site 311402014075 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 311402014076 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 311402014077 putative active site [active] 311402014078 metal binding site [ion binding]; metal-binding site 311402014079 Amino acid permease; Region: AA_permease; pfam00324 311402014080 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 311402014081 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 311402014082 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402014083 putative PBP binding loops; other site 311402014084 dimer interface [polypeptide binding]; other site 311402014085 ABC-ATPase subunit interface; other site 311402014086 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 311402014087 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402014088 dimer interface [polypeptide binding]; other site 311402014089 conserved gate region; other site 311402014090 putative PBP binding loops; other site 311402014091 ABC-ATPase subunit interface; other site 311402014092 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 311402014093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402014094 Walker A/P-loop; other site 311402014095 ATP binding site [chemical binding]; other site 311402014096 Q-loop/lid; other site 311402014097 ABC transporter signature motif; other site 311402014098 Walker B; other site 311402014099 D-loop; other site 311402014100 H-loop/switch region; other site 311402014101 TOBE domain; Region: TOBE_2; pfam08402 311402014102 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402014103 PAS fold; Region: PAS_3; pfam08447 311402014104 putative active site [active] 311402014105 heme pocket [chemical binding]; other site 311402014106 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402014107 PAS domain; Region: PAS_9; pfam13426 311402014108 putative active site [active] 311402014109 heme pocket [chemical binding]; other site 311402014110 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402014111 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402014112 dimer interface [polypeptide binding]; other site 311402014113 putative CheW interface [polypeptide binding]; other site 311402014114 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 311402014115 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402014116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402014117 homodimer interface [polypeptide binding]; other site 311402014118 catalytic residue [active] 311402014119 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402014120 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402014121 DNA binding residues [nucleotide binding] 311402014122 dimerization interface [polypeptide binding]; other site 311402014123 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402014124 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402014125 non-specific DNA binding site [nucleotide binding]; other site 311402014126 salt bridge; other site 311402014127 sequence-specific DNA binding site [nucleotide binding]; other site 311402014128 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 311402014129 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402014130 Coenzyme A binding pocket [chemical binding]; other site 311402014131 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 311402014132 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 311402014133 DNA binding residues [nucleotide binding] 311402014134 putative dimer interface [polypeptide binding]; other site 311402014135 hypothetical protein; Provisional; Region: PRK09266 311402014136 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 311402014137 substrate-cofactor binding pocket; other site 311402014138 homodimer interface [polypeptide binding]; other site 311402014139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402014140 catalytic residue [active] 311402014141 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 311402014142 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 311402014143 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 311402014144 substrate binding pocket [chemical binding]; other site 311402014145 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 311402014146 B12 binding site [chemical binding]; other site 311402014147 cobalt ligand [ion binding]; other site 311402014148 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 311402014149 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 311402014150 dimerization interface [polypeptide binding]; other site 311402014151 putative active cleft [active] 311402014152 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 311402014153 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 311402014154 Catalytic site; other site 311402014155 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 311402014156 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402014157 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 311402014158 DNA-binding site [nucleotide binding]; DNA binding site 311402014159 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402014160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402014161 homodimer interface [polypeptide binding]; other site 311402014162 catalytic residue [active] 311402014163 EamA-like transporter family; Region: EamA; pfam00892 311402014164 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 311402014165 Uncharacterized conserved protein [Function unknown]; Region: COG2968 311402014166 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 311402014167 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 311402014168 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 311402014169 NlpC/P60 family; Region: NLPC_P60; cl17555 311402014170 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 311402014171 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 311402014172 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 311402014173 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 311402014174 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 311402014175 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 311402014176 Protein of unknown function (DUF935); Region: DUF935; pfam06074 311402014177 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 311402014178 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 311402014179 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 311402014180 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 311402014181 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 311402014182 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 311402014183 Homeodomain-like domain; Region: HTH_23; cl17451 311402014184 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 311402014185 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 311402014186 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 311402014187 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 311402014188 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 311402014189 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 311402014190 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 311402014191 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 311402014192 ParB-like nuclease domain; Region: ParBc; pfam02195 311402014193 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 311402014194 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 311402014195 Helix-turn-helix; Region: HTH_3; pfam01381 311402014196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 311402014197 Integrase core domain; Region: rve; pfam00665 311402014198 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 311402014199 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402014200 Walker A motif; other site 311402014201 ATP binding site [chemical binding]; other site 311402014202 Walker B motif; other site 311402014203 arginine finger; other site 311402014204 Protein of unknown function (DUF935); Region: DUF935; pfam06074 311402014205 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 311402014206 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 311402014207 Terminase-like family; Region: Terminase_6; pfam03237 311402014208 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 311402014209 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 311402014210 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 311402014211 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 311402014212 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 311402014213 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 311402014214 AAA ATPase domain; Region: AAA_16; pfam13191 311402014215 AAA domain; Region: AAA_22; pfam13401 311402014216 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 311402014217 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 311402014218 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 311402014219 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 311402014220 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 311402014221 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402014222 non-specific DNA binding site [nucleotide binding]; other site 311402014223 salt bridge; other site 311402014224 sequence-specific DNA binding site [nucleotide binding]; other site 311402014225 Predicted transcriptional regulator [Transcription]; Region: COG2932 311402014226 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 311402014227 Catalytic site [active] 311402014228 rod shape-determining protein MreB; Provisional; Region: PRK13930 311402014229 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 311402014230 nucleotide binding site [chemical binding]; other site 311402014231 putative NEF/HSP70 interaction site [polypeptide binding]; other site 311402014232 SBD interface [polypeptide binding]; other site 311402014233 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 311402014234 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 311402014235 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 311402014236 DNA-binding site [nucleotide binding]; DNA binding site 311402014237 RNA-binding motif; other site 311402014238 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 311402014239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402014240 UDP-galactopyranose mutase; Region: GLF; pfam03275 311402014241 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402014242 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402014243 binding surface 311402014244 TPR motif; other site 311402014245 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 311402014246 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402014247 active site 311402014248 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 311402014249 serC leader; predicted by Infernal 311402014250 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 311402014251 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402014252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402014253 metal binding site [ion binding]; metal-binding site 311402014254 active site 311402014255 I-site; other site 311402014256 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402014257 Heme NO binding; Region: HNOB; pfam07700 311402014258 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 311402014259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402014260 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402014261 dimerization interface [polypeptide binding]; other site 311402014262 Lysine efflux permease [General function prediction only]; Region: COG1279 311402014263 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 311402014264 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 311402014265 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 311402014266 metal binding site [ion binding]; metal-binding site 311402014267 putative dimer interface [polypeptide binding]; other site 311402014268 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 311402014269 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 311402014270 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 311402014271 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 311402014272 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 311402014273 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402014274 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 311402014275 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402014276 DNA binding residues [nucleotide binding] 311402014277 DNA primase, catalytic core; Region: dnaG; TIGR01391 311402014278 CHC2 zinc finger; Region: zf-CHC2; cl17510 311402014279 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 311402014280 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 311402014281 active site 311402014282 metal binding site [ion binding]; metal-binding site 311402014283 interdomain interaction site; other site 311402014284 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 311402014285 BioY family; Region: BioY; pfam02632 311402014286 biotin synthase; Region: bioB; TIGR00433 311402014287 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402014288 FeS/SAM binding site; other site 311402014289 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 311402014290 Uncharacterized conserved protein [Function unknown]; Region: COG1610 311402014291 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 311402014292 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 311402014293 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 311402014294 catalytic site [active] 311402014295 subunit interface [polypeptide binding]; other site 311402014296 multidrug efflux protein; Reviewed; Region: PRK01766 311402014297 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 311402014298 cation binding site [ion binding]; other site 311402014299 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402014300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402014301 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 311402014302 putative effector binding pocket; other site 311402014303 putative dimerization interface [polypeptide binding]; other site 311402014304 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402014305 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402014306 active site 311402014307 catalytic tetrad [active] 311402014308 Predicted metalloprotease [General function prediction only]; Region: COG2321 311402014309 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 311402014310 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402014311 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 311402014312 putative C-terminal domain interface [polypeptide binding]; other site 311402014313 putative GSH binding site (G-site) [chemical binding]; other site 311402014314 putative dimer interface [polypeptide binding]; other site 311402014315 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 311402014316 putative N-terminal domain interface [polypeptide binding]; other site 311402014317 putative dimer interface [polypeptide binding]; other site 311402014318 putative substrate binding pocket (H-site) [chemical binding]; other site 311402014319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 311402014320 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 311402014321 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 311402014322 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402014323 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311402014324 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 311402014325 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402014326 ATP-grasp domain; Region: ATP-grasp_4; cl17255 311402014327 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 311402014328 IMP binding site; other site 311402014329 dimer interface [polypeptide binding]; other site 311402014330 partial ornithine binding site; other site 311402014331 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 311402014332 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 311402014333 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 311402014334 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 311402014335 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 311402014336 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402014337 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 311402014338 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 311402014339 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402014340 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402014341 putative DNA binding site [nucleotide binding]; other site 311402014342 putative Zn2+ binding site [ion binding]; other site 311402014343 AsnC family; Region: AsnC_trans_reg; pfam01037 311402014344 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 311402014345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 311402014346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402014347 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402014348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402014349 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 311402014350 putative effector binding pocket; other site 311402014351 dimerization interface [polypeptide binding]; other site 311402014352 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402014353 dimerization interface [polypeptide binding]; other site 311402014354 putative DNA binding site [nucleotide binding]; other site 311402014355 putative Zn2+ binding site [ion binding]; other site 311402014356 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 311402014357 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 311402014358 FMN binding site [chemical binding]; other site 311402014359 active site 311402014360 substrate binding site [chemical binding]; other site 311402014361 catalytic residue [active] 311402014362 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402014363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402014364 NAD(P) binding site [chemical binding]; other site 311402014365 active site 311402014366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402014367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402014368 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402014369 dimerization interface [polypeptide binding]; other site 311402014370 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 311402014371 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 311402014372 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 311402014373 OpgC protein; Region: OpgC_C; cl17858 311402014374 aspartate aminotransferase; Provisional; Region: PRK05764 311402014375 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402014376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402014377 homodimer interface [polypeptide binding]; other site 311402014378 catalytic residue [active] 311402014379 EamA-like transporter family; Region: EamA; pfam00892 311402014380 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 311402014381 DNA-binding site [nucleotide binding]; DNA binding site 311402014382 RNA-binding motif; other site 311402014383 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 311402014384 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402014385 MarR family; Region: MarR_2; pfam12802 311402014386 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402014387 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402014388 active site 311402014389 phosphorylation site [posttranslational modification] 311402014390 intermolecular recognition site; other site 311402014391 dimerization interface [polypeptide binding]; other site 311402014392 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402014393 DNA binding site [nucleotide binding] 311402014394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402014395 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 311402014396 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 311402014397 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402014398 ATP binding site [chemical binding]; other site 311402014399 Mg2+ binding site [ion binding]; other site 311402014400 G-X-G motif; other site 311402014401 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 311402014402 dimer interface [polypeptide binding]; other site 311402014403 putative tRNA-binding site [nucleotide binding]; other site 311402014404 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 311402014405 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 311402014406 Uncharacterized conserved protein [Function unknown]; Region: COG5465 311402014407 Membrane fusogenic activity; Region: BMFP; pfam04380 311402014408 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 311402014409 Uncharacterized conserved protein [Function unknown]; Region: COG1565 311402014410 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 311402014411 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 311402014412 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 311402014413 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 311402014414 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 311402014415 active site 311402014416 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 311402014417 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 311402014418 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402014419 active site 311402014420 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 311402014421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 311402014422 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 311402014423 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402014424 NAD(P) binding site [chemical binding]; other site 311402014425 catalytic residues [active] 311402014426 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 311402014427 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 311402014428 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 311402014429 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 311402014430 5S rRNA interface [nucleotide binding]; other site 311402014431 CTC domain interface [polypeptide binding]; other site 311402014432 L16 interface [polypeptide binding]; other site 311402014433 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402014434 dimerization interface [polypeptide binding]; other site 311402014435 PAS domain S-box; Region: sensory_box; TIGR00229 311402014436 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402014437 putative active site [active] 311402014438 heme pocket [chemical binding]; other site 311402014439 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402014440 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402014441 metal binding site [ion binding]; metal-binding site 311402014442 active site 311402014443 I-site; other site 311402014444 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402014445 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402014446 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402014447 substrate binding pocket [chemical binding]; other site 311402014448 membrane-bound complex binding site; other site 311402014449 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 311402014450 putative active site [active] 311402014451 catalytic residue [active] 311402014452 YcxB-like protein; Region: YcxB; pfam14317 311402014453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402014454 Coenzyme A binding pocket [chemical binding]; other site 311402014455 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 311402014456 GTP-binding protein YchF; Reviewed; Region: PRK09601 311402014457 YchF GTPase; Region: YchF; cd01900 311402014458 G1 box; other site 311402014459 GTP/Mg2+ binding site [chemical binding]; other site 311402014460 Switch I region; other site 311402014461 G2 box; other site 311402014462 Switch II region; other site 311402014463 G3 box; other site 311402014464 G4 box; other site 311402014465 G5 box; other site 311402014466 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 311402014467 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 311402014468 putative active site [active] 311402014469 putative catalytic site [active] 311402014470 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 311402014471 putative active site [active] 311402014472 putative catalytic site [active] 311402014473 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 311402014474 catalytic residues [active] 311402014475 dimer interface [polypeptide binding]; other site 311402014476 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 311402014477 active site 311402014478 NTP binding site [chemical binding]; other site 311402014479 metal binding triad [ion binding]; metal-binding site 311402014480 antibiotic binding site [chemical binding]; other site 311402014481 HEPN domain; Region: HEPN; cl00824 311402014482 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402014483 active site 311402014484 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 311402014485 cytochrome b; Provisional; Region: CYTB; MTH00119 311402014486 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 311402014487 Qi binding site; other site 311402014488 intrachain domain interface; other site 311402014489 interchain domain interface [polypeptide binding]; other site 311402014490 heme bH binding site [chemical binding]; other site 311402014491 heme bL binding site [chemical binding]; other site 311402014492 Qo binding site; other site 311402014493 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 311402014494 interchain domain interface [polypeptide binding]; other site 311402014495 intrachain domain interface; other site 311402014496 Qi binding site; other site 311402014497 Qo binding site; other site 311402014498 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 311402014499 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 311402014500 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 311402014501 [2Fe-2S] cluster binding site [ion binding]; other site 311402014502 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 311402014503 putative catalytic site [active] 311402014504 putative metal binding site [ion binding]; other site 311402014505 putative phosphate binding site [ion binding]; other site 311402014506 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402014507 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402014508 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 311402014509 Walker A/P-loop; other site 311402014510 ATP binding site [chemical binding]; other site 311402014511 Q-loop/lid; other site 311402014512 ABC transporter signature motif; other site 311402014513 Walker B; other site 311402014514 D-loop; other site 311402014515 H-loop/switch region; other site 311402014516 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402014517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402014518 Coenzyme A binding pocket [chemical binding]; other site 311402014519 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402014520 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402014521 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 311402014522 Walker A/P-loop; other site 311402014523 ATP binding site [chemical binding]; other site 311402014524 Q-loop/lid; other site 311402014525 ABC transporter signature motif; other site 311402014526 Walker B; other site 311402014527 D-loop; other site 311402014528 H-loop/switch region; other site 311402014529 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 311402014530 flagellin; Reviewed; Region: PRK12687 311402014531 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 311402014532 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 311402014533 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 311402014534 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 311402014535 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 311402014536 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 311402014537 active site 311402014538 NTP binding site [chemical binding]; other site 311402014539 metal binding triad [ion binding]; metal-binding site 311402014540 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 311402014541 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 311402014542 putative active site [active] 311402014543 putative CoA binding site [chemical binding]; other site 311402014544 nudix motif; other site 311402014545 metal binding site [ion binding]; metal-binding site 311402014546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 311402014547 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 311402014548 MoxR-like ATPases [General function prediction only]; Region: COG0714 311402014549 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 311402014550 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 311402014551 Protein of unknown function DUF58; Region: DUF58; pfam01882 311402014552 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 311402014553 Protein of unknown function (DUF3769); Region: DUF3769; pfam12600 311402014554 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 311402014555 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 311402014556 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 311402014557 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402014558 Coenzyme A binding pocket [chemical binding]; other site 311402014559 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 311402014560 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 311402014561 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402014562 Coenzyme A binding pocket [chemical binding]; other site 311402014563 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 311402014564 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 311402014565 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 311402014566 putative dimer interface [polypeptide binding]; other site 311402014567 N-terminal domain interface [polypeptide binding]; other site 311402014568 putative substrate binding pocket (H-site) [chemical binding]; other site 311402014569 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 311402014570 nudix motif; other site 311402014571 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402014572 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 311402014573 putative active site [active] 311402014574 putative metal binding site [ion binding]; other site 311402014575 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 311402014576 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 311402014577 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 311402014578 oligomer interface [polypeptide binding]; other site 311402014579 active site residues [active] 311402014580 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 311402014581 benzoate transporter; Region: benE; TIGR00843 311402014582 2-isopropylmalate synthase; Validated; Region: PRK03739 311402014583 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 311402014584 active site 311402014585 catalytic residues [active] 311402014586 metal binding site [ion binding]; metal-binding site 311402014587 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 311402014588 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 311402014589 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402014590 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402014591 putative DNA binding site [nucleotide binding]; other site 311402014592 putative Zn2+ binding site [ion binding]; other site 311402014593 AsnC family; Region: AsnC_trans_reg; pfam01037 311402014594 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 311402014595 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 311402014596 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 311402014597 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 311402014598 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 311402014599 PAAR motif; Region: PAAR_motif; cl15808 311402014600 PAAR motif; Region: PAAR_motif; pfam05488 311402014601 Stf0 sulphotransferase; Region: Sulphotransf; pfam09037 311402014602 anthranilate synthase; Provisional; Region: PRK13566 311402014603 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 311402014604 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 311402014605 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 311402014606 glutamine binding [chemical binding]; other site 311402014607 catalytic triad [active] 311402014608 putative acetyltransferase YhhY; Provisional; Region: PRK10140 311402014609 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402014610 Coenzyme A binding pocket [chemical binding]; other site 311402014611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 311402014612 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 311402014613 Cation efflux family; Region: Cation_efflux; pfam01545 311402014614 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 311402014615 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 311402014616 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 311402014617 Uncharacterized conserved protein [Function unknown]; Region: COG0397 311402014618 hypothetical protein; Validated; Region: PRK00029 311402014619 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 311402014620 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 311402014621 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 311402014622 N-terminal plug; other site 311402014623 ligand-binding site [chemical binding]; other site 311402014624 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 311402014625 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 311402014626 Potassium binding sites [ion binding]; other site 311402014627 Cesium cation binding sites [ion binding]; other site 311402014628 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402014629 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311402014630 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402014631 DNA binding residues [nucleotide binding] 311402014632 dimerization interface [polypeptide binding]; other site 311402014633 PAS fold; Region: PAS_3; pfam08447 311402014634 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 311402014635 thymidine kinase; Provisional; Region: PRK04296 311402014636 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 311402014637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402014638 dimer interface [polypeptide binding]; other site 311402014639 conserved gate region; other site 311402014640 ABC-ATPase subunit interface; other site 311402014641 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 311402014642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402014643 Walker A/P-loop; other site 311402014644 ATP binding site [chemical binding]; other site 311402014645 Q-loop/lid; other site 311402014646 ABC transporter signature motif; other site 311402014647 Walker B; other site 311402014648 D-loop; other site 311402014649 H-loop/switch region; other site 311402014650 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 311402014651 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 311402014652 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402014653 dimerization interface [polypeptide binding]; other site 311402014654 putative DNA binding site [nucleotide binding]; other site 311402014655 putative Zn2+ binding site [ion binding]; other site 311402014656 omega amino acid--pyruvate transaminase; Provisional; Region: PRK13360 311402014657 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 311402014658 inhibitor-cofactor binding pocket; inhibition site 311402014659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402014660 catalytic residue [active] 311402014661 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 311402014662 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 311402014663 dimerization interface [polypeptide binding]; other site 311402014664 ligand binding site [chemical binding]; other site 311402014665 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 311402014666 active site 311402014667 catalytic residues [active] 311402014668 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cl17391 311402014669 P-loop motif; other site 311402014670 ATP binding site [chemical binding]; other site 311402014671 Chloramphenicol (Cm) binding site [chemical binding]; other site 311402014672 catalytic residue [active] 311402014673 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 311402014674 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402014675 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 311402014676 active site 311402014677 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 311402014678 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 311402014679 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 311402014680 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 311402014681 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 311402014682 active site 311402014683 catalytic site [active] 311402014684 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402014685 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 311402014686 GTP-binding protein Der; Reviewed; Region: PRK00093 311402014687 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 311402014688 G1 box; other site 311402014689 GTP/Mg2+ binding site [chemical binding]; other site 311402014690 Switch I region; other site 311402014691 G2 box; other site 311402014692 Switch II region; other site 311402014693 G3 box; other site 311402014694 G4 box; other site 311402014695 G5 box; other site 311402014696 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 311402014697 G1 box; other site 311402014698 GTP/Mg2+ binding site [chemical binding]; other site 311402014699 Switch I region; other site 311402014700 G2 box; other site 311402014701 G3 box; other site 311402014702 Switch II region; other site 311402014703 G4 box; other site 311402014704 G5 box; other site 311402014705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 311402014706 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 311402014707 Dehydratase family; Region: ILVD_EDD; cl00340 311402014708 NnrU protein; Region: NnrU; pfam07298 311402014709 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 311402014710 microcin B17 transporter; Reviewed; Region: PRK11098 311402014711 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 311402014712 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 311402014713 active site 311402014714 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 311402014715 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 311402014716 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 311402014717 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 311402014718 N- and C-terminal domain interface [polypeptide binding]; other site 311402014719 active site 311402014720 MgATP binding site [chemical binding]; other site 311402014721 catalytic site [active] 311402014722 metal binding site [ion binding]; metal-binding site 311402014723 glycerol binding site [chemical binding]; other site 311402014724 homotetramer interface [polypeptide binding]; other site 311402014725 homodimer interface [polypeptide binding]; other site 311402014726 FBP binding site [chemical binding]; other site 311402014727 protein IIAGlc interface [polypeptide binding]; other site 311402014728 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 311402014729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402014730 NAD(P) binding site [chemical binding]; other site 311402014731 active site 311402014732 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 311402014733 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402014734 catalytic loop [active] 311402014735 iron binding site [ion binding]; other site 311402014736 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 311402014737 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 311402014738 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 311402014739 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 311402014740 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 311402014741 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 311402014742 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 311402014743 XdhC Rossmann domain; Region: XdhC_C; pfam13478 311402014744 Tetratricopeptide repeat; Region: TPR_12; pfam13424 311402014745 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402014746 binding surface 311402014747 TPR motif; other site 311402014748 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 311402014749 binding surface 311402014750 TPR repeat; Region: TPR_11; pfam13414 311402014751 TPR motif; other site 311402014752 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 311402014753 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402014754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402014755 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 311402014756 dimerization interface [polypeptide binding]; other site 311402014757 substrate binding pocket [chemical binding]; other site 311402014758 Predicted membrane protein [Function unknown]; Region: COG3748 311402014759 Protein of unknown function (DUF989); Region: DUF989; pfam06181 311402014760 Cytochrome c; Region: Cytochrom_C; pfam00034 311402014761 guanine deaminase; Provisional; Region: PRK09228 311402014762 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 311402014763 active site 311402014764 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 311402014765 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 311402014766 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402014767 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402014768 Walker A/P-loop; other site 311402014769 ATP binding site [chemical binding]; other site 311402014770 Q-loop/lid; other site 311402014771 ABC transporter signature motif; other site 311402014772 Walker B; other site 311402014773 D-loop; other site 311402014774 H-loop/switch region; other site 311402014775 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402014776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402014777 dimer interface [polypeptide binding]; other site 311402014778 conserved gate region; other site 311402014779 putative PBP binding loops; other site 311402014780 ABC-ATPase subunit interface; other site 311402014781 argininosuccinate synthase; Provisional; Region: PRK13820 311402014782 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 311402014783 ANP binding site [chemical binding]; other site 311402014784 Substrate Binding Site II [chemical binding]; other site 311402014785 Substrate Binding Site I [chemical binding]; other site 311402014786 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 311402014787 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402014788 putative DNA binding site [nucleotide binding]; other site 311402014789 putative Zn2+ binding site [ion binding]; other site 311402014790 AsnC family; Region: AsnC_trans_reg; pfam01037 311402014791 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 311402014792 PemK-like protein; Region: PemK; pfam02452 311402014793 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 311402014794 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402014795 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402014796 dimer interface [polypeptide binding]; other site 311402014797 phosphorylation site [posttranslational modification] 311402014798 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402014799 ATP binding site [chemical binding]; other site 311402014800 Mg2+ binding site [ion binding]; other site 311402014801 G-X-G motif; other site 311402014802 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 311402014803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402014804 active site 311402014805 phosphorylation site [posttranslational modification] 311402014806 intermolecular recognition site; other site 311402014807 dimerization interface [polypeptide binding]; other site 311402014808 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402014809 DNA binding site [nucleotide binding] 311402014810 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 311402014811 active site 311402014812 metal binding site [ion binding]; metal-binding site 311402014813 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 311402014814 active site 311402014815 homotetramer interface [polypeptide binding]; other site 311402014816 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 311402014817 ureidoglycolate hydrolase; Provisional; Region: PRK03606 311402014818 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 311402014819 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 311402014820 acyl-activating enzyme (AAE) consensus motif; other site 311402014821 AMP binding site [chemical binding]; other site 311402014822 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402014823 glutamine synthetase; Region: PLN02284 311402014824 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 311402014825 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 311402014826 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 311402014827 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 311402014828 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 311402014829 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 311402014830 putative NAD(P) binding site [chemical binding]; other site 311402014831 putative substrate binding site [chemical binding]; other site 311402014832 catalytic Zn binding site [ion binding]; other site 311402014833 structural Zn binding site [ion binding]; other site 311402014834 dimer interface [polypeptide binding]; other site 311402014835 Protein of unknown function (DUF992); Region: DUF992; pfam06186 311402014836 CsbD-like; Region: CsbD; pfam05532 311402014837 Cache domain; Region: Cache_1; pfam02743 311402014838 PAS domain S-box; Region: sensory_box; TIGR00229 311402014839 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402014840 putative active site [active] 311402014841 heme pocket [chemical binding]; other site 311402014842 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402014843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402014844 metal binding site [ion binding]; metal-binding site 311402014845 active site 311402014846 I-site; other site 311402014847 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 311402014848 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 311402014849 active site 311402014850 catalytic site [active] 311402014851 tetramer interface [polypeptide binding]; other site 311402014852 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 311402014853 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402014854 Uncharacterized conserved protein [Function unknown]; Region: COG4121 311402014855 PAS fold; Region: PAS_7; pfam12860 311402014856 PAS fold; Region: PAS_4; pfam08448 311402014857 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402014858 putative active site [active] 311402014859 heme pocket [chemical binding]; other site 311402014860 PAS domain; Region: PAS; smart00091 311402014861 PAS fold; Region: PAS_7; pfam12860 311402014862 PAS fold; Region: PAS_7; pfam12860 311402014863 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402014864 dimer interface [polypeptide binding]; other site 311402014865 phosphorylation site [posttranslational modification] 311402014866 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402014867 ATP binding site [chemical binding]; other site 311402014868 Mg2+ binding site [ion binding]; other site 311402014869 G-X-G motif; other site 311402014870 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402014871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402014872 active site 311402014873 phosphorylation site [posttranslational modification] 311402014874 intermolecular recognition site; other site 311402014875 dimerization interface [polypeptide binding]; other site 311402014876 helicase 45; Provisional; Region: PTZ00424 311402014877 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 311402014878 ATP binding site [chemical binding]; other site 311402014879 Mg++ binding site [ion binding]; other site 311402014880 motif III; other site 311402014881 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402014882 nucleotide binding region [chemical binding]; other site 311402014883 ATP-binding site [chemical binding]; other site 311402014884 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 311402014885 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 311402014886 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 311402014887 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 311402014888 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402014889 catalytic residue [active] 311402014890 Predicted transcriptional regulators [Transcription]; Region: COG1733 311402014891 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 311402014892 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 311402014893 putative FMN binding site [chemical binding]; other site 311402014894 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 311402014895 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 311402014896 active site 311402014897 DNA polymerase IV; Validated; Region: PRK02406 311402014898 DNA binding site [nucleotide binding] 311402014899 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 311402014900 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 311402014901 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 311402014902 active site 311402014903 catalytic site [active] 311402014904 substrate binding site [chemical binding]; other site 311402014905 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 311402014906 ornithine decarboxylase; Provisional; Region: PRK13578 311402014907 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 311402014908 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402014909 catalytic residue [active] 311402014910 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 311402014911 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 311402014912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402014913 Coenzyme A binding pocket [chemical binding]; other site 311402014914 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 311402014915 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 311402014916 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 311402014917 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 311402014918 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 311402014919 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 311402014920 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 311402014921 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 311402014922 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 311402014923 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 311402014924 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 311402014925 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 311402014926 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402014927 Walker A motif; other site 311402014928 ATP binding site [chemical binding]; other site 311402014929 Walker B motif; other site 311402014930 arginine finger; other site 311402014931 Helix-turn-helix; Region: HTH_3; pfam01381 311402014932 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 311402014933 Integrase core domain; Region: rve; pfam00665 311402014934 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 311402014935 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 311402014936 hexamer interface [polypeptide binding]; other site 311402014937 ligand binding site [chemical binding]; other site 311402014938 putative active site [active] 311402014939 NAD(P) binding site [chemical binding]; other site 311402014940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402014941 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 311402014942 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402014943 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 311402014944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402014945 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402014946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402014947 Transposase; Region: HTH_Tnp_1; pfam01527 311402014948 Protein of unknown function (DUF971); Region: DUF971; cl01414 311402014949 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 311402014950 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 311402014951 substrate binding pocket [chemical binding]; other site 311402014952 active site 311402014953 iron coordination sites [ion binding]; other site 311402014954 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 311402014955 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 311402014956 tetramer interface [polypeptide binding]; other site 311402014957 active site 311402014958 Mg2+/Mn2+ binding site [ion binding]; other site 311402014959 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 311402014960 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 311402014961 PYR/PP interface [polypeptide binding]; other site 311402014962 dimer interface [polypeptide binding]; other site 311402014963 TPP binding site [chemical binding]; other site 311402014964 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 311402014965 TPP-binding site; other site 311402014966 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 311402014967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402014968 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402014969 dimerization interface [polypeptide binding]; other site 311402014970 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 311402014971 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 311402014972 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402014973 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402014974 Transcription antiterminator [Transcription]; Region: NusG; COG0250 311402014975 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), AnFA1; Region: NGN_SP_AnfA1; cd09894 311402014976 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 311402014977 heterodimer interface [polypeptide binding]; other site 311402014978 homodimer interface [polypeptide binding]; other site 311402014979 Helix-turn-helix domain; Region: HTH_36; pfam13730 311402014980 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402014981 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402014982 non-specific DNA binding site [nucleotide binding]; other site 311402014983 salt bridge; other site 311402014984 sequence-specific DNA binding site [nucleotide binding]; other site 311402014985 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 311402014986 Catalytic site [active] 311402014987 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402014988 active site 311402014989 DNA binding site [nucleotide binding] 311402014990 Int/Topo IB signature motif; other site 311402014991 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 311402014992 MarR family; Region: MarR_2; cl17246 311402014993 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 311402014994 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 311402014995 NADP binding site [chemical binding]; other site 311402014996 dimer interface [polypeptide binding]; other site 311402014997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402014998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402014999 LysR substrate binding domain; Region: LysR_substrate; pfam03466 311402015000 dimerization interface [polypeptide binding]; other site 311402015001 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 311402015002 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 311402015003 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 311402015004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 311402015005 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 311402015006 Uncharacterized conserved protein [Function unknown]; Region: COG2308 311402015007 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 311402015008 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 311402015009 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 311402015010 catalytic residues [active] 311402015011 catalytic nucleophile [active] 311402015012 Presynaptic Site I dimer interface [polypeptide binding]; other site 311402015013 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 311402015014 Synaptic Flat tetramer interface [polypeptide binding]; other site 311402015015 Synaptic Site I dimer interface [polypeptide binding]; other site 311402015016 DNA binding site [nucleotide binding] 311402015017 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 311402015018 DNA-binding interface [nucleotide binding]; DNA binding site 311402015019 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 311402015020 apolar tunnel; other site 311402015021 heme binding site [chemical binding]; other site 311402015022 dimerization interface [polypeptide binding]; other site 311402015023 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 311402015024 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 311402015025 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 311402015026 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402015027 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 311402015028 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 311402015029 homodimer interface [polypeptide binding]; other site 311402015030 active site 311402015031 FMN binding site [chemical binding]; other site 311402015032 substrate binding site [chemical binding]; other site 311402015033 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 311402015034 CHASE domain; Region: CHASE; cl01369 311402015035 PAS fold; Region: PAS_3; pfam08447 311402015036 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402015037 putative active site [active] 311402015038 heme pocket [chemical binding]; other site 311402015039 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402015040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402015041 metal binding site [ion binding]; metal-binding site 311402015042 active site 311402015043 I-site; other site 311402015044 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402015045 EamA-like transporter family; Region: EamA; pfam00892 311402015046 EamA-like transporter family; Region: EamA; pfam00892 311402015047 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 311402015048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402015049 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 311402015050 allantoate amidohydrolase; Reviewed; Region: PRK12893 311402015051 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 311402015052 active site 311402015053 metal binding site [ion binding]; metal-binding site 311402015054 dimer interface [polypeptide binding]; other site 311402015055 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 311402015056 putative active site [active] 311402015057 phenylhydantoinase; Validated; Region: PRK08323 311402015058 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 311402015059 tetramer interface [polypeptide binding]; other site 311402015060 active site 311402015061 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402015062 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402015063 Walker A/P-loop; other site 311402015064 ATP binding site [chemical binding]; other site 311402015065 Q-loop/lid; other site 311402015066 ABC transporter signature motif; other site 311402015067 Walker B; other site 311402015068 D-loop; other site 311402015069 H-loop/switch region; other site 311402015070 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402015071 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 311402015072 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402015073 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402015074 dimer interface [polypeptide binding]; other site 311402015075 conserved gate region; other site 311402015076 putative PBP binding loops; other site 311402015077 ABC-ATPase subunit interface; other site 311402015078 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 311402015079 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 311402015080 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402015081 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 311402015082 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402015083 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 311402015084 ligand binding site [chemical binding]; other site 311402015085 flexible hinge region; other site 311402015086 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 311402015087 putative switch regulator; other site 311402015088 non-specific DNA interactions [nucleotide binding]; other site 311402015089 DNA binding site [nucleotide binding] 311402015090 sequence specific DNA binding site [nucleotide binding]; other site 311402015091 putative cAMP binding site [chemical binding]; other site 311402015092 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 311402015093 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311402015094 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 311402015095 UreF; Region: UreF; pfam01730 311402015096 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 311402015097 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 311402015098 dimer interface [polypeptide binding]; other site 311402015099 catalytic residues [active] 311402015100 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402015101 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402015102 metal binding site [ion binding]; metal-binding site 311402015103 active site 311402015104 I-site; other site 311402015105 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 311402015106 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 311402015107 catalytic triad [active] 311402015108 dimer interface [polypeptide binding]; other site 311402015109 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402015110 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402015111 urease subunit alpha; Reviewed; Region: ureC; PRK13207 311402015112 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 311402015113 subunit interactions [polypeptide binding]; other site 311402015114 active site 311402015115 flap region; other site 311402015116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 311402015117 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 311402015118 gamma-beta subunit interface [polypeptide binding]; other site 311402015119 alpha-beta subunit interface [polypeptide binding]; other site 311402015120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 311402015121 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 311402015122 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 311402015123 alpha-gamma subunit interface [polypeptide binding]; other site 311402015124 beta-gamma subunit interface [polypeptide binding]; other site 311402015125 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 311402015126 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 311402015127 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 311402015128 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 311402015129 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 311402015130 Walker A/P-loop; other site 311402015131 ATP binding site [chemical binding]; other site 311402015132 Q-loop/lid; other site 311402015133 ABC transporter signature motif; other site 311402015134 Walker B; other site 311402015135 D-loop; other site 311402015136 H-loop/switch region; other site 311402015137 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 311402015138 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 311402015139 Walker A/P-loop; other site 311402015140 ATP binding site [chemical binding]; other site 311402015141 Q-loop/lid; other site 311402015142 ABC transporter signature motif; other site 311402015143 Walker B; other site 311402015144 D-loop; other site 311402015145 H-loop/switch region; other site 311402015146 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 311402015147 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 311402015148 TM-ABC transporter signature motif; other site 311402015149 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402015150 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 311402015151 TM-ABC transporter signature motif; other site 311402015152 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 311402015153 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 311402015154 putative ligand binding site [chemical binding]; other site 311402015155 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 311402015156 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 311402015157 GAF domain; Region: GAF; pfam01590 311402015158 Phytochrome region; Region: PHY; pfam00360 311402015159 HWE histidine kinase; Region: HWE_HK; pfam07536 311402015160 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402015161 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402015162 active site 311402015163 phosphorylation site [posttranslational modification] 311402015164 intermolecular recognition site; other site 311402015165 dimerization interface [polypeptide binding]; other site 311402015166 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 311402015167 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 311402015168 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 311402015169 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 311402015170 dimer interface [polypeptide binding]; other site 311402015171 phosphorylation site [posttranslational modification] 311402015172 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402015173 ATP binding site [chemical binding]; other site 311402015174 Mg2+ binding site [ion binding]; other site 311402015175 G-X-G motif; other site 311402015176 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402015177 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402015178 active site 311402015179 phosphorylation site [posttranslational modification] 311402015180 intermolecular recognition site; other site 311402015181 dimerization interface [polypeptide binding]; other site 311402015182 Response regulator receiver domain; Region: Response_reg; pfam00072 311402015183 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402015184 active site 311402015185 phosphorylation site [posttranslational modification] 311402015186 intermolecular recognition site; other site 311402015187 dimerization interface [polypeptide binding]; other site 311402015188 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311402015189 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402015190 DNA binding residues [nucleotide binding] 311402015191 Predicted ATPase [General function prediction only]; Region: COG3911 311402015192 AAA domain; Region: AAA_28; pfam13521 311402015193 PemK-like protein; Region: PemK; cl00995 311402015194 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 311402015195 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 311402015196 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 311402015197 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 311402015198 Switch I; other site 311402015199 Switch II; other site 311402015200 septum formation inhibitor; Reviewed; Region: minC; PRK05177 311402015201 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 311402015202 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 311402015203 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 311402015204 dimerization interface [polypeptide binding]; other site 311402015205 ligand binding site [chemical binding]; other site 311402015206 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 311402015207 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 311402015208 Walker A/P-loop; other site 311402015209 ATP binding site [chemical binding]; other site 311402015210 Q-loop/lid; other site 311402015211 ABC transporter signature motif; other site 311402015212 Walker B; other site 311402015213 D-loop; other site 311402015214 H-loop/switch region; other site 311402015215 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 311402015216 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 311402015217 Walker A/P-loop; other site 311402015218 ATP binding site [chemical binding]; other site 311402015219 Q-loop/lid; other site 311402015220 ABC transporter signature motif; other site 311402015221 Walker B; other site 311402015222 D-loop; other site 311402015223 H-loop/switch region; other site 311402015224 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 311402015225 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 311402015226 TM-ABC transporter signature motif; other site 311402015227 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402015228 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 311402015229 TM-ABC transporter signature motif; other site 311402015230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402015231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402015232 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 311402015233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402015234 putative substrate translocation pore; other site 311402015235 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 311402015236 ligand-binding site [chemical binding]; other site 311402015237 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 311402015238 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 311402015239 active site 311402015240 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 311402015241 Bacterial sugar transferase; Region: Bac_transf; pfam02397 311402015242 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 311402015243 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402015244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402015245 active site 311402015246 phosphorylation site [posttranslational modification] 311402015247 intermolecular recognition site; other site 311402015248 dimerization interface [polypeptide binding]; other site 311402015249 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402015250 DNA binding site [nucleotide binding] 311402015251 Response regulator receiver domain; Region: Response_reg; pfam00072 311402015252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402015253 active site 311402015254 phosphorylation site [posttranslational modification] 311402015255 dimerization interface [polypeptide binding]; other site 311402015256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 311402015257 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 311402015258 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 311402015259 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 311402015260 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 311402015261 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 311402015262 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 311402015263 RNA binding surface [nucleotide binding]; other site 311402015264 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 311402015265 active site 311402015266 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 311402015267 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402015268 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 311402015269 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 311402015270 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402015271 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402015272 DNA binding residues [nucleotide binding] 311402015273 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 311402015274 transmembrane helices; other site 311402015275 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 311402015276 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402015277 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402015278 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 311402015279 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 311402015280 GDP-binding site [chemical binding]; other site 311402015281 ACT binding site; other site 311402015282 IMP binding site; other site 311402015283 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311402015284 EamA-like transporter family; Region: EamA; pfam00892 311402015285 EamA-like transporter family; Region: EamA; pfam00892 311402015286 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402015287 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 311402015288 active site 311402015289 metal binding site [ion binding]; metal-binding site 311402015290 Creatinine amidohydrolase; Region: Creatininase; pfam02633 311402015291 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402015292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402015293 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402015294 dimerization interface [polypeptide binding]; other site 311402015295 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 311402015296 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 311402015297 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 311402015298 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 311402015299 Walker A/P-loop; other site 311402015300 ATP binding site [chemical binding]; other site 311402015301 Q-loop/lid; other site 311402015302 ABC transporter signature motif; other site 311402015303 Walker B; other site 311402015304 D-loop; other site 311402015305 H-loop/switch region; other site 311402015306 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 311402015307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402015308 dimer interface [polypeptide binding]; other site 311402015309 conserved gate region; other site 311402015310 ABC-ATPase subunit interface; other site 311402015311 cytosine deaminase-like protein; Validated; Region: PRK07583 311402015312 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 311402015313 active site 311402015314 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 311402015315 FAD binding domain; Region: FAD_binding_4; pfam01565 311402015316 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 311402015317 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 311402015318 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 311402015319 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 311402015320 homotrimer interaction site [polypeptide binding]; other site 311402015321 putative active site [active] 311402015322 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 311402015323 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 311402015324 NAD binding site [chemical binding]; other site 311402015325 catalytic residues [active] 311402015326 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 311402015327 ligand binding site [chemical binding]; other site 311402015328 active site 311402015329 UGI interface [polypeptide binding]; other site 311402015330 catalytic site [active] 311402015331 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 311402015332 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 311402015333 MarR family; Region: MarR_2; cl17246 311402015334 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 311402015335 Chitin synthase; Region: Chitin_synth_1; pfam01644 311402015336 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 311402015337 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 311402015338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 311402015339 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 311402015340 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 311402015341 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 311402015342 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402015343 conserved gate region; other site 311402015344 dimer interface [polypeptide binding]; other site 311402015345 putative PBP binding loops; other site 311402015346 ABC-ATPase subunit interface; other site 311402015347 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 311402015348 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402015349 dimer interface [polypeptide binding]; other site 311402015350 conserved gate region; other site 311402015351 putative PBP binding loops; other site 311402015352 ABC-ATPase subunit interface; other site 311402015353 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 311402015354 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 311402015355 Walker A/P-loop; other site 311402015356 ATP binding site [chemical binding]; other site 311402015357 Q-loop/lid; other site 311402015358 ABC transporter signature motif; other site 311402015359 Walker B; other site 311402015360 D-loop; other site 311402015361 H-loop/switch region; other site 311402015362 TOBE domain; Region: TOBE_2; pfam08402 311402015363 sorbitol dehydrogenase; Provisional; Region: PRK07067 311402015364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402015365 NAD(P) binding site [chemical binding]; other site 311402015366 active site 311402015367 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 311402015368 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 311402015369 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 311402015370 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 311402015371 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 311402015372 motif II; other site 311402015373 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 311402015374 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 311402015375 N- and C-terminal domain interface [polypeptide binding]; other site 311402015376 active site 311402015377 MgATP binding site [chemical binding]; other site 311402015378 catalytic site [active] 311402015379 metal binding site [ion binding]; metal-binding site 311402015380 carbohydrate binding site [chemical binding]; other site 311402015381 putative homodimer interface [polypeptide binding]; other site 311402015382 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 311402015383 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 311402015384 Ligand Binding Site [chemical binding]; other site 311402015385 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 311402015386 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 311402015387 N-terminal plug; other site 311402015388 ligand-binding site [chemical binding]; other site 311402015389 Uncharacterized conserved protein [Function unknown]; Region: COG3791 311402015390 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 311402015391 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402015392 ABC-ATPase subunit interface; other site 311402015393 dimer interface [polypeptide binding]; other site 311402015394 putative PBP binding regions; other site 311402015395 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 311402015396 dimer interface [polypeptide binding]; other site 311402015397 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 311402015398 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 311402015399 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 311402015400 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 311402015401 siderophore binding site; other site 311402015402 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 311402015403 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 311402015404 Walker A/P-loop; other site 311402015405 ATP binding site [chemical binding]; other site 311402015406 Q-loop/lid; other site 311402015407 ABC transporter signature motif; other site 311402015408 Walker B; other site 311402015409 D-loop; other site 311402015410 H-loop/switch region; other site 311402015411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402015412 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 311402015413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 311402015414 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 311402015415 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 311402015416 N-terminal plug; other site 311402015417 ligand-binding site [chemical binding]; other site 311402015418 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402015419 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402015420 catalytic residue [active] 311402015421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 311402015422 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 311402015423 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 311402015424 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 311402015425 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 311402015426 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 311402015427 ligand binding site [chemical binding]; other site 311402015428 NAD binding site [chemical binding]; other site 311402015429 dimerization interface [polypeptide binding]; other site 311402015430 catalytic site [active] 311402015431 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 311402015432 putative L-serine binding site [chemical binding]; other site 311402015433 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 311402015434 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 311402015435 catalytic residue [active] 311402015436 serC leader; predicted by Infernal 311402015437 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 311402015438 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 311402015439 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 311402015440 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402015441 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 311402015442 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 311402015443 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 311402015444 active site 311402015445 putative DNA-binding cleft [nucleotide binding]; other site 311402015446 dimer interface [polypeptide binding]; other site 311402015447 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 311402015448 RuvA N terminal domain; Region: RuvA_N; pfam01330 311402015449 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 311402015450 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 311402015451 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 311402015452 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402015453 Walker A motif; other site 311402015454 ATP binding site [chemical binding]; other site 311402015455 Walker B motif; other site 311402015456 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 311402015457 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 311402015458 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402015459 putative active site [active] 311402015460 putative metal binding site [ion binding]; other site 311402015461 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 311402015462 nudix motif; other site 311402015463 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 311402015464 nudix motif; other site 311402015465 DinB family; Region: DinB; cl17821 311402015466 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 311402015467 active site 311402015468 TolQ protein; Region: tolQ; TIGR02796 311402015469 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 311402015470 TolR protein; Region: tolR; TIGR02801 311402015471 translocation protein TolB; Provisional; Region: tolB; PRK05137 311402015472 TolB amino-terminal domain; Region: TolB_N; pfam04052 311402015473 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 311402015474 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 311402015475 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 311402015476 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 311402015477 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 311402015478 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 311402015479 ligand binding site [chemical binding]; other site 311402015480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 311402015481 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402015482 binding surface 311402015483 TPR motif; other site 311402015484 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 311402015485 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 311402015486 Ligand Binding Site [chemical binding]; other site 311402015487 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 311402015488 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402015489 Walker A motif; other site 311402015490 ATP binding site [chemical binding]; other site 311402015491 Walker B motif; other site 311402015492 arginine finger; other site 311402015493 Peptidase family M41; Region: Peptidase_M41; pfam01434 311402015494 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 311402015495 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 311402015496 active site 311402015497 substrate binding site [chemical binding]; other site 311402015498 metal binding site [ion binding]; metal-binding site 311402015499 hypothetical protein; Validated; Region: PRK00110 311402015500 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 311402015501 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 311402015502 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 311402015503 potassium/proton antiporter; Reviewed; Region: PRK05326 311402015504 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 311402015505 Transporter associated domain; Region: CorC_HlyC; smart01091 311402015506 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 311402015507 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 311402015508 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 311402015509 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 311402015510 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 311402015511 TPP-binding site [chemical binding]; other site 311402015512 dimer interface [polypeptide binding]; other site 311402015513 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 311402015514 PYR/PP interface [polypeptide binding]; other site 311402015515 dimer interface [polypeptide binding]; other site 311402015516 TPP binding site [chemical binding]; other site 311402015517 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 311402015518 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 311402015519 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 311402015520 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402015521 dimerization interface [polypeptide binding]; other site 311402015522 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402015523 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402015524 dimer interface [polypeptide binding]; other site 311402015525 putative CheW interface [polypeptide binding]; other site 311402015526 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 311402015527 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 311402015528 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 311402015529 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 311402015530 putative active site [active] 311402015531 metal binding site [ion binding]; metal-binding site 311402015532 homodimer binding site [polypeptide binding]; other site 311402015533 Phosphoglycerate kinase; Region: PGK; pfam00162 311402015534 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 311402015535 substrate binding site [chemical binding]; other site 311402015536 hinge regions; other site 311402015537 ADP binding site [chemical binding]; other site 311402015538 catalytic site [active] 311402015539 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 311402015540 active site 311402015541 intersubunit interface [polypeptide binding]; other site 311402015542 catalytic residue [active] 311402015543 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 311402015544 HPP family; Region: HPP; pfam04982 311402015545 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 311402015546 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402015547 putative substrate translocation pore; other site 311402015548 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 311402015549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 311402015550 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 311402015551 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 311402015552 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402015553 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 311402015554 Walker A/P-loop; other site 311402015555 ATP binding site [chemical binding]; other site 311402015556 Q-loop/lid; other site 311402015557 ABC transporter signature motif; other site 311402015558 Walker B; other site 311402015559 D-loop; other site 311402015560 H-loop/switch region; other site 311402015561 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 311402015562 FAD binding domain; Region: FAD_binding_2; pfam00890 311402015563 hypothetical protein; Validated; Region: PRK09039 311402015564 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 311402015565 ligand binding site [chemical binding]; other site 311402015566 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 311402015567 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 311402015568 active site 311402015569 dimerization interface [polypeptide binding]; other site 311402015570 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 311402015571 Sel1-like repeats; Region: SEL1; smart00671 311402015572 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 311402015573 thiamine phosphate binding site [chemical binding]; other site 311402015574 active site 311402015575 pyrophosphate binding site [ion binding]; other site 311402015576 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 311402015577 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402015578 dimerization interface [polypeptide binding]; other site 311402015579 putative DNA binding site [nucleotide binding]; other site 311402015580 putative Zn2+ binding site [ion binding]; other site 311402015581 Protein of unknown function (DUF465); Region: DUF465; cl01070 311402015582 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 311402015583 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 311402015584 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 311402015585 ATP-grasp domain; Region: ATP-grasp; pfam02222 311402015586 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 311402015587 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402015588 TPR motif; other site 311402015589 binding surface 311402015590 Tetratricopeptide repeat; Region: TPR_16; pfam13432 311402015591 PGAP1-like protein; Region: PGAP1; pfam07819 311402015592 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 311402015593 pyruvate kinase; Provisional; Region: PRK06247 311402015594 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 311402015595 domain interfaces; other site 311402015596 active site 311402015597 Predicted integral membrane protein [Function unknown]; Region: COG5480 311402015598 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 311402015599 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 311402015600 hypothetical protein; Provisional; Region: PRK13694 311402015601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 311402015602 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 311402015603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402015604 active site 311402015605 dimerization interface [polypeptide binding]; other site 311402015606 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402015607 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 311402015608 Walker A motif; other site 311402015609 ATP binding site [chemical binding]; other site 311402015610 Walker B motif; other site 311402015611 arginine finger; other site 311402015612 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 311402015613 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 311402015614 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 311402015615 active site 311402015616 Zn binding site [ion binding]; other site 311402015617 aminodeoxychorismate synthase; Provisional; Region: PRK07508 311402015618 chorismate binding enzyme; Region: Chorismate_bind; cl10555 311402015619 hypothetical protein; Provisional; Region: PRK07546 311402015620 substrate-cofactor binding pocket; other site 311402015621 homodimer interface [polypeptide binding]; other site 311402015622 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 311402015623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402015624 catalytic residue [active] 311402015625 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 311402015626 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 311402015627 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 311402015628 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 311402015629 active site 311402015630 metal binding site [ion binding]; metal-binding site 311402015631 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 311402015632 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 311402015633 ferrochelatase; Reviewed; Region: hemH; PRK00035 311402015634 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 311402015635 C-terminal domain interface [polypeptide binding]; other site 311402015636 active site 311402015637 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 311402015638 active site 311402015639 N-terminal domain interface [polypeptide binding]; other site 311402015640 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402015641 dimerization interface [polypeptide binding]; other site 311402015642 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402015643 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402015644 dimer interface [polypeptide binding]; other site 311402015645 putative CheW interface [polypeptide binding]; other site 311402015646 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 311402015647 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 311402015648 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 311402015649 active site 311402015650 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 311402015651 Ligand Binding Site [chemical binding]; other site 311402015652 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 311402015653 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 311402015654 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 311402015655 KpsF/GutQ family protein; Region: kpsF; TIGR00393 311402015656 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 311402015657 putative active site [active] 311402015658 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 311402015659 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 311402015660 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 311402015661 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 311402015662 active site 311402015663 tetramer interface; other site 311402015664 Transglycosylase SLT domain; Region: SLT_2; pfam13406 311402015665 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402015666 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402015667 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 311402015668 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 311402015669 active site 311402015670 catalytic triad [active] 311402015671 oxyanion hole [active] 311402015672 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402015673 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402015674 dimerization interface [polypeptide binding]; other site 311402015675 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402015676 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402015677 dimer interface [polypeptide binding]; other site 311402015678 putative CheW interface [polypeptide binding]; other site 311402015679 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 311402015680 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402015681 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 311402015682 oligomeric interface; other site 311402015683 putative active site [active] 311402015684 homodimer interface [polypeptide binding]; other site 311402015685 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 311402015686 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 311402015687 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 311402015688 active site 311402015689 dimer interface [polypeptide binding]; other site 311402015690 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 311402015691 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 311402015692 active site 311402015693 FMN binding site [chemical binding]; other site 311402015694 substrate binding site [chemical binding]; other site 311402015695 3Fe-4S cluster binding site [ion binding]; other site 311402015696 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 311402015697 domain interface; other site 311402015698 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 311402015699 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 311402015700 tetramer interface [polypeptide binding]; other site 311402015701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402015702 catalytic residue [active] 311402015703 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 311402015704 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 311402015705 putative dimer interface [polypeptide binding]; other site 311402015706 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 311402015707 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 311402015708 TAP-like protein; Region: Abhydrolase_4; pfam08386 311402015709 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 311402015710 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 311402015711 active site 311402015712 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 311402015713 Response regulator receiver domain; Region: Response_reg; pfam00072 311402015714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402015715 active site 311402015716 phosphorylation site [posttranslational modification] 311402015717 intermolecular recognition site; other site 311402015718 dimerization interface [polypeptide binding]; other site 311402015719 Mechanosensitive ion channel; Region: MS_channel; pfam00924 311402015720 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 311402015721 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 311402015722 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 311402015723 Substrate binding site; other site 311402015724 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 311402015725 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 311402015726 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 311402015727 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 311402015728 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 311402015729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 311402015730 Uncharacterized conserved protein [Function unknown]; Region: COG2308 311402015731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 311402015732 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 311402015733 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 311402015734 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 311402015735 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 311402015736 von Willebrand factor type A domain; Region: VWA_2; pfam13519 311402015737 metal ion-dependent adhesion site (MIDAS); other site 311402015738 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 311402015739 homodimer interface [polypeptide binding]; other site 311402015740 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 311402015741 active site pocket [active] 311402015742 glycogen branching enzyme; Provisional; Region: PRK05402 311402015743 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 311402015744 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 311402015745 active site 311402015746 catalytic site [active] 311402015747 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 311402015748 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 311402015749 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 311402015750 ligand binding site; other site 311402015751 oligomer interface; other site 311402015752 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 311402015753 dimer interface [polypeptide binding]; other site 311402015754 N-terminal domain interface [polypeptide binding]; other site 311402015755 sulfate 1 binding site; other site 311402015756 glycogen synthase; Provisional; Region: glgA; PRK00654 311402015757 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 311402015758 ADP-binding pocket [chemical binding]; other site 311402015759 homodimer interface [polypeptide binding]; other site 311402015760 phosphoglucomutase; Region: PLN02307 311402015761 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 311402015762 substrate binding site [chemical binding]; other site 311402015763 dimer interface [polypeptide binding]; other site 311402015764 active site 311402015765 metal binding site [ion binding]; metal-binding site 311402015766 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 311402015767 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 311402015768 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 311402015769 active site 311402015770 catalytic site [active] 311402015771 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 311402015772 putative active site [active] 311402015773 putative catalytic site [active] 311402015774 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 311402015775 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 311402015776 DctM-like transporters; Region: DctM; pfam06808 311402015777 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 311402015778 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 311402015779 TPR repeat; Region: TPR_11; pfam13414 311402015780 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402015781 TPR motif; other site 311402015782 binding surface 311402015783 TPR repeat; Region: TPR_11; pfam13414 311402015784 TPR repeat; Region: TPR_11; pfam13414 311402015785 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402015786 binding surface 311402015787 TPR motif; other site 311402015788 TPR repeat; Region: TPR_11; pfam13414 311402015789 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402015790 TPR repeat; Region: TPR_11; pfam13414 311402015791 binding surface 311402015792 TPR motif; other site 311402015793 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 311402015794 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 311402015795 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 311402015796 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 311402015797 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 311402015798 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 311402015799 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 311402015800 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 311402015801 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402015802 NAD(P) binding site [chemical binding]; other site 311402015803 active site 311402015804 Predicted transcriptional regulators [Transcription]; Region: COG1733 311402015805 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 311402015806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 311402015807 RelB antitoxin; Region: RelB; cl01171 311402015808 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 311402015809 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 311402015810 Protein of unknown function (DUF497); Region: DUF497; pfam04365 311402015811 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402015812 non-specific DNA binding site [nucleotide binding]; other site 311402015813 salt bridge; other site 311402015814 sequence-specific DNA binding site [nucleotide binding]; other site 311402015815 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 311402015816 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 311402015817 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 311402015818 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 311402015819 catalytic triad [active] 311402015820 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 311402015821 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 311402015822 putative ligand binding site [chemical binding]; other site 311402015823 NAD binding site [chemical binding]; other site 311402015824 catalytic site [active] 311402015825 Transcriptional regulators [Transcription]; Region: PurR; COG1609 311402015826 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402015827 DNA binding site [nucleotide binding] 311402015828 domain linker motif; other site 311402015829 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 311402015830 putative dimerization interface [polypeptide binding]; other site 311402015831 putative ligand binding site [chemical binding]; other site 311402015832 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311402015833 MarR family; Region: MarR_2; pfam12802 311402015834 Creatinine amidohydrolase; Region: Creatininase; pfam02633 311402015835 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 311402015836 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 311402015837 P-loop, Walker A motif; other site 311402015838 Base recognition motif; other site 311402015839 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 311402015840 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 311402015841 FOG: WD40 repeat [General function prediction only]; Region: COG2319 311402015842 structural tetrad; other site 311402015843 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402015844 dimerization interface [polypeptide binding]; other site 311402015845 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402015846 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402015847 dimer interface [polypeptide binding]; other site 311402015848 putative CheW interface [polypeptide binding]; other site 311402015849 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 311402015850 Phosphoesterase family; Region: Phosphoesterase; pfam04185 311402015851 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 311402015852 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 311402015853 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402015854 Coenzyme A binding pocket [chemical binding]; other site 311402015855 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 311402015856 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 311402015857 dimer interface [polypeptide binding]; other site 311402015858 active site 311402015859 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402015860 catalytic residues [active] 311402015861 substrate binding site [chemical binding]; other site 311402015862 speF leader; predicted by Infernal 311402015863 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402015864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402015865 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 311402015866 putative effector binding pocket; other site 311402015867 dimerization interface [polypeptide binding]; other site 311402015868 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 311402015869 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 311402015870 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 311402015871 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402015872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 311402015873 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 311402015874 putative metal binding site [ion binding]; other site 311402015875 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 311402015876 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 311402015877 active site 311402015878 intersubunit interface [polypeptide binding]; other site 311402015879 catalytic residue [active] 311402015880 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 311402015881 putative active site [active] 311402015882 putative metal binding residues [ion binding]; other site 311402015883 signature motif; other site 311402015884 putative dimer interface [polypeptide binding]; other site 311402015885 putative phosphate binding site [ion binding]; other site 311402015886 CHAD domain; Region: CHAD; pfam05235 311402015887 Predicted transcriptional regulator [Transcription]; Region: COG2378 311402015888 HTH domain; Region: HTH_11; pfam08279 311402015889 WYL domain; Region: WYL; pfam13280 311402015890 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_11; cd07261 311402015891 putative dimer interface [polypeptide binding]; other site 311402015892 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 311402015893 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 311402015894 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 311402015895 active site residue [active] 311402015896 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 311402015897 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 311402015898 beta-galactosidase; Region: BGL; TIGR03356 311402015899 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402015900 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402015901 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 311402015902 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 311402015903 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 311402015904 AP (apurinic/apyrimidinic) site pocket; other site 311402015905 DNA interaction; other site 311402015906 Metal-binding active site; metal-binding site 311402015907 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 311402015908 xylose isomerase; Provisional; Region: PRK05474 311402015909 xylose isomerase; Region: xylose_isom_A; TIGR02630 311402015910 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 311402015911 N- and C-terminal domain interface [polypeptide binding]; other site 311402015912 D-xylulose kinase; Region: XylB; TIGR01312 311402015913 active site 311402015914 MgATP binding site [chemical binding]; other site 311402015915 catalytic site [active] 311402015916 metal binding site [ion binding]; metal-binding site 311402015917 xylulose binding site [chemical binding]; other site 311402015918 homodimer interface [polypeptide binding]; other site 311402015919 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 311402015920 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 311402015921 DNA binding site [nucleotide binding] 311402015922 domain linker motif; other site 311402015923 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 311402015924 putative ligand binding site [chemical binding]; other site 311402015925 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 311402015926 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402015927 putative substrate translocation pore; other site 311402015928 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 311402015929 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402015930 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402015931 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 311402015932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 311402015933 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 311402015934 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 311402015935 CysZ-like protein; Reviewed; Region: PRK12768 311402015936 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 311402015937 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 311402015938 minor groove reading motif; other site 311402015939 helix-hairpin-helix signature motif; other site 311402015940 substrate binding pocket [chemical binding]; other site 311402015941 active site 311402015942 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 311402015943 Integral membrane protein [Function unknown]; Region: COG5488 311402015944 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 311402015945 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 311402015946 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 311402015947 DNA binding site [nucleotide binding] 311402015948 active site 311402015949 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 311402015950 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 311402015951 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402015952 DNA binding residues [nucleotide binding] 311402015953 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 311402015954 transaldolase-like protein; Provisional; Region: PTZ00411 311402015955 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 311402015956 active site 311402015957 dimer interface [polypeptide binding]; other site 311402015958 catalytic residue [active] 311402015959 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 311402015960 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311402015961 EamA-like transporter family; Region: EamA; pfam00892 311402015962 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 311402015963 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 311402015964 dimer interface [polypeptide binding]; other site 311402015965 putative anticodon binding site; other site 311402015966 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 311402015967 motif 1; other site 311402015968 active site 311402015969 motif 2; other site 311402015970 motif 3; other site 311402015971 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 311402015972 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 311402015973 HIGH motif; other site 311402015974 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 311402015975 active site 311402015976 KMSKS motif; other site 311402015977 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 311402015978 transmembrane helices; other site 311402015979 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 311402015980 TrkA-C domain; Region: TrkA_C; pfam02080 311402015981 TrkA-C domain; Region: TrkA_C; pfam02080 311402015982 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 311402015983 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 311402015984 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 311402015985 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 311402015986 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402015987 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402015988 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 311402015989 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402015990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402015991 Walker A/P-loop; other site 311402015992 ATP binding site [chemical binding]; other site 311402015993 Q-loop/lid; other site 311402015994 ABC transporter signature motif; other site 311402015995 Walker B; other site 311402015996 D-loop; other site 311402015997 H-loop/switch region; other site 311402015998 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402015999 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402016000 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 311402016001 TPR repeat; Region: TPR_11; pfam13414 311402016002 TPR repeat; Region: TPR_11; pfam13414 311402016003 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402016004 binding surface 311402016005 TPR motif; other site 311402016006 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402016007 Tetratricopeptide repeat; Region: TPR_16; pfam13432 311402016008 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402016009 TPR motif; other site 311402016010 binding surface 311402016011 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402016012 binding surface 311402016013 TPR motif; other site 311402016014 TPR repeat; Region: TPR_11; pfam13414 311402016015 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402016016 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402016017 TPR motif; other site 311402016018 binding surface 311402016019 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402016020 binding surface 311402016021 TPR motif; other site 311402016022 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402016023 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402016024 binding surface 311402016025 TPR motif; other site 311402016026 TPR repeat; Region: TPR_11; pfam13414 311402016027 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402016028 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 311402016029 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 311402016030 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 311402016031 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402016032 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402016033 Walker A/P-loop; other site 311402016034 ATP binding site [chemical binding]; other site 311402016035 Q-loop/lid; other site 311402016036 ABC transporter signature motif; other site 311402016037 Walker B; other site 311402016038 D-loop; other site 311402016039 H-loop/switch region; other site 311402016040 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 311402016041 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402016042 Walker A/P-loop; other site 311402016043 ATP binding site [chemical binding]; other site 311402016044 Q-loop/lid; other site 311402016045 ABC transporter signature motif; other site 311402016046 Walker B; other site 311402016047 D-loop; other site 311402016048 H-loop/switch region; other site 311402016049 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 311402016050 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 311402016051 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 311402016052 metal binding site [ion binding]; metal-binding site 311402016053 putative dimer interface [polypeptide binding]; other site 311402016054 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402016055 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 311402016056 peptide binding site [polypeptide binding]; other site 311402016057 dimer interface [polypeptide binding]; other site 311402016058 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402016059 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 311402016060 peptide binding site [polypeptide binding]; other site 311402016061 dimer interface [polypeptide binding]; other site 311402016062 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402016063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402016064 dimer interface [polypeptide binding]; other site 311402016065 conserved gate region; other site 311402016066 putative PBP binding loops; other site 311402016067 ABC-ATPase subunit interface; other site 311402016068 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 311402016069 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402016070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402016071 dimer interface [polypeptide binding]; other site 311402016072 conserved gate region; other site 311402016073 putative PBP binding loops; other site 311402016074 ABC-ATPase subunit interface; other site 311402016075 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 311402016076 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 311402016077 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402016078 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 311402016079 Walker A/P-loop; other site 311402016080 ATP binding site [chemical binding]; other site 311402016081 Q-loop/lid; other site 311402016082 ABC transporter signature motif; other site 311402016083 Walker B; other site 311402016084 D-loop; other site 311402016085 H-loop/switch region; other site 311402016086 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 311402016087 Walker A/P-loop; other site 311402016088 ATP binding site [chemical binding]; other site 311402016089 Q-loop/lid; other site 311402016090 ABC transporter signature motif; other site 311402016091 Walker B; other site 311402016092 D-loop; other site 311402016093 H-loop/switch region; other site 311402016094 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 311402016095 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 311402016096 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 311402016097 HlyD family secretion protein; Region: HlyD_3; pfam13437 311402016098 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 311402016099 putative active site pocket [active] 311402016100 cleavage site 311402016101 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 311402016102 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402016103 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 311402016104 active site 311402016105 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 311402016106 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402016107 Walker A/P-loop; other site 311402016108 ATP binding site [chemical binding]; other site 311402016109 Q-loop/lid; other site 311402016110 ABC transporter signature motif; other site 311402016111 Walker B; other site 311402016112 D-loop; other site 311402016113 H-loop/switch region; other site 311402016114 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 311402016115 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402016116 Walker A/P-loop; other site 311402016117 ATP binding site [chemical binding]; other site 311402016118 Q-loop/lid; other site 311402016119 ABC transporter signature motif; other site 311402016120 Walker B; other site 311402016121 D-loop; other site 311402016122 H-loop/switch region; other site 311402016123 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402016124 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 311402016125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402016126 dimer interface [polypeptide binding]; other site 311402016127 conserved gate region; other site 311402016128 putative PBP binding loops; other site 311402016129 ABC-ATPase subunit interface; other site 311402016130 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402016131 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402016132 dimer interface [polypeptide binding]; other site 311402016133 conserved gate region; other site 311402016134 putative PBP binding loops; other site 311402016135 ABC-ATPase subunit interface; other site 311402016136 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 311402016137 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 311402016138 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 311402016139 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 311402016140 active site 311402016141 dimer interface [polypeptide binding]; other site 311402016142 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 311402016143 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 311402016144 substrate binding site [chemical binding]; other site 311402016145 ATP binding site [chemical binding]; other site 311402016146 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 311402016147 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402016148 DNA-binding site [nucleotide binding]; DNA binding site 311402016149 FCD domain; Region: FCD; pfam07729 311402016150 glucuronate isomerase; Reviewed; Region: PRK02925 311402016151 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 311402016152 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 311402016153 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 311402016154 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 311402016155 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 311402016156 NADP binding site [chemical binding]; other site 311402016157 homodimer interface [polypeptide binding]; other site 311402016158 active site 311402016159 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 311402016160 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 311402016161 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 311402016162 mannonate dehydratase; Provisional; Region: PRK03906 311402016163 mannonate dehydratase; Region: uxuA; TIGR00695 311402016164 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 311402016165 galactarate dehydratase; Region: galactar-dH20; TIGR03248 311402016166 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 311402016167 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 311402016168 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 311402016169 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 311402016170 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 311402016171 ligand binding site [chemical binding]; other site 311402016172 homodimer interface [polypeptide binding]; other site 311402016173 NAD(P) binding site [chemical binding]; other site 311402016174 trimer interface B [polypeptide binding]; other site 311402016175 trimer interface A [polypeptide binding]; other site 311402016176 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 311402016177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402016178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402016179 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 311402016180 dimerization interface [polypeptide binding]; other site 311402016181 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 311402016182 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 311402016183 putative ligand binding site [chemical binding]; other site 311402016184 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 311402016185 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 311402016186 Walker A/P-loop; other site 311402016187 ATP binding site [chemical binding]; other site 311402016188 Q-loop/lid; other site 311402016189 ABC transporter signature motif; other site 311402016190 Walker B; other site 311402016191 D-loop; other site 311402016192 H-loop/switch region; other site 311402016193 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 311402016194 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 311402016195 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402016196 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 311402016197 TM-ABC transporter signature motif; other site 311402016198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 311402016199 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 311402016200 dihydroxy-acid dehydratase; Validated; Region: PRK06131 311402016201 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 311402016202 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 311402016203 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 311402016204 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 311402016205 dimer interface [polypeptide binding]; other site 311402016206 NADP binding site [chemical binding]; other site 311402016207 catalytic residues [active] 311402016208 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 311402016209 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 311402016210 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 311402016211 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 311402016212 active site 311402016213 intersubunit interface [polypeptide binding]; other site 311402016214 catalytic residue [active] 311402016215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 311402016216 EamA-like transporter family; Region: EamA; pfam00892 311402016217 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 311402016218 EamA-like transporter family; Region: EamA; cl17759 311402016219 Transcriptional regulators [Transcription]; Region: FadR; COG2186 311402016220 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402016221 DNA-binding site [nucleotide binding]; DNA binding site 311402016222 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 311402016223 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 311402016224 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402016225 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 311402016226 putative binding site; other site 311402016227 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402016228 binding surface 311402016229 TPR motif; other site 311402016230 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 311402016231 MG2 domain; Region: A2M_N; pfam01835 311402016232 Alpha-2-macroglobulin family; Region: A2M; pfam00207 311402016233 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 311402016234 surface patch; other site 311402016235 thioester region; other site 311402016236 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 311402016237 Transglycosylase; Region: Transgly; pfam00912 311402016238 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 311402016239 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 311402016240 HAMP domain; Region: HAMP; pfam00672 311402016241 dimerization interface [polypeptide binding]; other site 311402016242 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402016243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402016244 dimer interface [polypeptide binding]; other site 311402016245 putative CheW interface [polypeptide binding]; other site 311402016246 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 311402016247 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 311402016248 putative NAD(P) binding site [chemical binding]; other site 311402016249 active site 311402016250 putative substrate binding site [chemical binding]; other site 311402016251 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 311402016252 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402016253 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402016254 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 311402016255 putative ADP-binding pocket [chemical binding]; other site 311402016256 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 311402016257 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 311402016258 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 311402016259 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 311402016260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402016261 dimer interface [polypeptide binding]; other site 311402016262 conserved gate region; other site 311402016263 putative PBP binding loops; other site 311402016264 ABC-ATPase subunit interface; other site 311402016265 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 311402016266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402016267 dimer interface [polypeptide binding]; other site 311402016268 conserved gate region; other site 311402016269 putative PBP binding loops; other site 311402016270 ABC-ATPase subunit interface; other site 311402016271 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 311402016272 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 311402016273 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 311402016274 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402016275 Walker A/P-loop; other site 311402016276 ATP binding site [chemical binding]; other site 311402016277 Q-loop/lid; other site 311402016278 ABC transporter signature motif; other site 311402016279 Walker B; other site 311402016280 D-loop; other site 311402016281 H-loop/switch region; other site 311402016282 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402016283 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 311402016284 Walker A/P-loop; other site 311402016285 ATP binding site [chemical binding]; other site 311402016286 Q-loop/lid; other site 311402016287 ABC transporter signature motif; other site 311402016288 Walker B; other site 311402016289 D-loop; other site 311402016290 H-loop/switch region; other site 311402016291 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 311402016292 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 311402016293 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 311402016294 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 311402016295 NodB motif; other site 311402016296 putative active site [active] 311402016297 putative catalytic site [active] 311402016298 putative Zn binding site [ion binding]; other site 311402016299 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 311402016300 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402016301 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 311402016302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402016303 NAD(P) binding site [chemical binding]; other site 311402016304 active site 311402016305 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 311402016306 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 311402016307 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 311402016308 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402016309 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 311402016310 ligand binding site [chemical binding]; other site 311402016311 flexible hinge region; other site 311402016312 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402016313 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402016314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402016315 Walker A/P-loop; other site 311402016316 ATP binding site [chemical binding]; other site 311402016317 Q-loop/lid; other site 311402016318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402016319 Q-loop/lid; other site 311402016320 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402016321 ABC transporter signature motif; other site 311402016322 Walker B; other site 311402016323 D-loop; other site 311402016324 H-loop/switch region; other site 311402016325 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 311402016326 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 311402016327 active site 311402016328 metal binding site [ion binding]; metal-binding site 311402016329 DNA binding site [nucleotide binding] 311402016330 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 311402016331 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 311402016332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402016333 Walker A/P-loop; other site 311402016334 ATP binding site [chemical binding]; other site 311402016335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402016336 Q-loop/lid; other site 311402016337 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402016338 ABC transporter signature motif; other site 311402016339 Walker B; other site 311402016340 D-loop; other site 311402016341 H-loop/switch region; other site 311402016342 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 311402016343 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402016344 dimer interface [polypeptide binding]; other site 311402016345 putative CheW interface [polypeptide binding]; other site 311402016346 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 311402016347 Peptidase family M23; Region: Peptidase_M23; pfam01551 311402016348 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 311402016349 Clp amino terminal domain; Region: Clp_N; pfam02861 311402016350 Clp amino terminal domain; Region: Clp_N; pfam02861 311402016351 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402016352 Walker A motif; other site 311402016353 ATP binding site [chemical binding]; other site 311402016354 Walker B motif; other site 311402016355 arginine finger; other site 311402016356 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402016357 Walker A motif; other site 311402016358 ATP binding site [chemical binding]; other site 311402016359 Walker B motif; other site 311402016360 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 311402016361 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 311402016362 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 311402016363 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402016364 S-adenosylmethionine binding site [chemical binding]; other site 311402016365 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 311402016366 peptide chain release factor 1; Validated; Region: prfA; PRK00591 311402016367 This domain is found in peptide chain release factors; Region: PCRF; smart00937 311402016368 RF-1 domain; Region: RF-1; pfam00472 311402016369 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 311402016370 GAF domain; Region: GAF; pfam01590 311402016371 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 311402016372 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 311402016373 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 311402016374 aspartate kinase; Reviewed; Region: PRK06635 311402016375 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 311402016376 putative nucleotide binding site [chemical binding]; other site 311402016377 putative catalytic residues [active] 311402016378 putative Mg ion binding site [ion binding]; other site 311402016379 putative aspartate binding site [chemical binding]; other site 311402016380 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 311402016381 putative allosteric regulatory site; other site 311402016382 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 311402016383 Predicted integral membrane protein [Function unknown]; Region: COG0392 311402016384 Uncharacterized conserved protein [Function unknown]; Region: COG2898 311402016385 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 311402016386 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 311402016387 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 311402016388 Bacterial SH3 domain; Region: SH3_3; pfam08239 311402016389 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 311402016390 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402016391 S-adenosylmethionine binding site [chemical binding]; other site 311402016392 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 311402016393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 311402016394 Predicted amidohydrolase [General function prediction only]; Region: COG0388 311402016395 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 311402016396 putative active site [active] 311402016397 catalytic triad [active] 311402016398 dimer interface [polypeptide binding]; other site 311402016399 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 311402016400 GSH binding site [chemical binding]; other site 311402016401 catalytic residues [active] 311402016402 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 311402016403 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402016404 active site 311402016405 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 311402016406 Flp/Fap pilin component; Region: Flp_Fap; cl01585 311402016407 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 311402016408 active site 311402016409 8-oxo-dGMP binding site [chemical binding]; other site 311402016410 nudix motif; other site 311402016411 metal binding site [ion binding]; metal-binding site 311402016412 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 311402016413 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402016414 Coenzyme A binding pocket [chemical binding]; other site 311402016415 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 311402016416 heterotetramer interface [polypeptide binding]; other site 311402016417 active site pocket [active] 311402016418 cleavage site 311402016419 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 311402016420 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 311402016421 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 311402016422 ATP binding site [chemical binding]; other site 311402016423 putative Mg++ binding site [ion binding]; other site 311402016424 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 311402016425 SEC-C motif; Region: SEC-C; pfam02810 311402016426 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 311402016427 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 311402016428 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 311402016429 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 311402016430 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 311402016431 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 311402016432 active site 311402016433 acyl-activating enzyme (AAE) consensus motif; other site 311402016434 putative CoA binding site [chemical binding]; other site 311402016435 AMP binding site [chemical binding]; other site 311402016436 HAMP domain; Region: HAMP; pfam00672 311402016437 dimerization interface [polypeptide binding]; other site 311402016438 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402016439 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402016440 metal binding site [ion binding]; metal-binding site 311402016441 active site 311402016442 I-site; other site 311402016443 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 311402016444 Integrase core domain; Region: rve; pfam00665 311402016445 Integrase core domain; Region: rve_3; pfam13683 311402016446 Phosphotransferase enzyme family; Region: APH; pfam01636 311402016447 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 311402016448 active site 311402016449 substrate binding site [chemical binding]; other site 311402016450 ATP binding site [chemical binding]; other site 311402016451 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402016452 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402016453 active site 311402016454 catalytic tetrad [active] 311402016455 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402016456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402016457 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 311402016458 putative effector binding pocket; other site 311402016459 putative dimerization interface [polypeptide binding]; other site 311402016460 Transcriptional regulators [Transcription]; Region: MarR; COG1846 311402016461 MarR family; Region: MarR_2; pfam12802 311402016462 Predicted membrane protein [Function unknown]; Region: COG1238 311402016463 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 311402016464 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 311402016465 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 311402016466 active site 311402016467 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 311402016468 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 311402016469 minor groove reading motif; other site 311402016470 helix-hairpin-helix signature motif; other site 311402016471 substrate binding pocket [chemical binding]; other site 311402016472 active site 311402016473 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 311402016474 active site 311402016475 HIGH motif; other site 311402016476 nucleotide binding site [chemical binding]; other site 311402016477 active site 311402016478 KMSKS motif; other site 311402016479 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 311402016480 short chain dehydrogenase; Provisional; Region: PRK05993 311402016481 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 311402016482 NADP binding site [chemical binding]; other site 311402016483 active site 311402016484 steroid binding site; other site 311402016485 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 311402016486 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 311402016487 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 311402016488 Ligand binding site [chemical binding]; other site 311402016489 Electron transfer flavoprotein domain; Region: ETF; pfam01012 311402016490 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 311402016491 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 311402016492 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 311402016493 HAMP domain; Region: HAMP; pfam00672 311402016494 dimerization interface [polypeptide binding]; other site 311402016495 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 311402016496 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402016497 dimer interface [polypeptide binding]; other site 311402016498 putative CheW interface [polypeptide binding]; other site 311402016499 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 311402016500 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 311402016501 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 311402016502 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 311402016503 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 311402016504 catalytic residues [active] 311402016505 argininosuccinate lyase; Provisional; Region: PRK00855 311402016506 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 311402016507 active sites [active] 311402016508 tetramer interface [polypeptide binding]; other site 311402016509 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 311402016510 diaminopimelate decarboxylase; Region: lysA; TIGR01048 311402016511 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 311402016512 active site 311402016513 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402016514 substrate binding site [chemical binding]; other site 311402016515 catalytic residues [active] 311402016516 dimer interface [polypeptide binding]; other site 311402016517 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 311402016518 Response regulator receiver domain; Region: Response_reg; pfam00072 311402016519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402016520 active site 311402016521 phosphorylation site [posttranslational modification] 311402016522 intermolecular recognition site; other site 311402016523 dimerization interface [polypeptide binding]; other site 311402016524 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 311402016525 active site 311402016526 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 311402016527 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 311402016528 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 311402016529 Walker A/P-loop; other site 311402016530 ATP binding site [chemical binding]; other site 311402016531 Q-loop/lid; other site 311402016532 ABC transporter signature motif; other site 311402016533 Walker B; other site 311402016534 D-loop; other site 311402016535 H-loop/switch region; other site 311402016536 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 311402016537 Uncharacterized conserved protein [Function unknown]; Region: COG1434 311402016538 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 311402016539 putative active site [active] 311402016540 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 311402016541 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 311402016542 putative acyl-acceptor binding pocket; other site 311402016543 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 311402016544 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 311402016545 putative active site pocket [active] 311402016546 dimerization interface [polypeptide binding]; other site 311402016547 putative catalytic residue [active] 311402016548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 311402016549 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 311402016550 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 311402016551 prephenate dehydrogenase; Validated; Region: PRK08507 311402016552 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 311402016553 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402016554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402016555 homodimer interface [polypeptide binding]; other site 311402016556 catalytic residue [active] 311402016557 Methyltransferase domain; Region: Methyltransf_23; pfam13489 311402016558 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402016559 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 311402016560 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 311402016561 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 311402016562 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 311402016563 EamA-like transporter family; Region: EamA; pfam00892 311402016564 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 311402016565 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 311402016566 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 311402016567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 311402016568 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 311402016569 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 311402016570 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 311402016571 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 311402016572 metal ion-dependent adhesion site (MIDAS); other site 311402016573 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 311402016574 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 311402016575 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 311402016576 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 311402016577 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 311402016578 HSP70 interaction site [polypeptide binding]; other site 311402016579 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 311402016580 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 311402016581 active site 311402016582 dimer interface [polypeptide binding]; other site 311402016583 metal binding site [ion binding]; metal-binding site 311402016584 shikimate kinase; Provisional; Region: PRK13946 311402016585 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 311402016586 ADP binding site [chemical binding]; other site 311402016587 magnesium binding site [ion binding]; other site 311402016588 putative shikimate binding site; other site 311402016589 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 311402016590 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402016591 active site 311402016592 DNA binding site [nucleotide binding] 311402016593 Int/Topo IB signature motif; other site 311402016594 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 311402016595 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 311402016596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 311402016597 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 311402016598 CPxP motif; other site 311402016599 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 311402016600 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311402016601 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 311402016602 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 311402016603 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 311402016604 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 311402016605 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 311402016606 metal binding site [ion binding]; metal-binding site 311402016607 putative dimer interface [polypeptide binding]; other site 311402016608 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 311402016609 Domain of unknown function DUF20; Region: UPF0118; pfam01594 311402016610 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311402016611 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402016612 DNA binding residues [nucleotide binding] 311402016613 dimerization interface [polypeptide binding]; other site 311402016614 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 311402016615 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402016616 DNA binding residues [nucleotide binding] 311402016617 dimerization interface [polypeptide binding]; other site 311402016618 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 311402016619 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 311402016620 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 311402016621 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13497 311402016622 Response regulator receiver domain; Region: Response_reg; pfam00072 311402016623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402016624 active site 311402016625 phosphorylation site [posttranslational modification] 311402016626 intermolecular recognition site; other site 311402016627 dimerization interface [polypeptide binding]; other site 311402016628 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 311402016629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402016630 active site 311402016631 phosphorylation site [posttranslational modification] 311402016632 intermolecular recognition site; other site 311402016633 dimerization interface [polypeptide binding]; other site 311402016634 CheB methylesterase; Region: CheB_methylest; pfam01339 311402016635 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 311402016636 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 311402016637 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 311402016638 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 311402016639 putative CheA interaction surface; other site 311402016640 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 311402016641 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 311402016642 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402016643 ATP binding site [chemical binding]; other site 311402016644 Mg2+ binding site [ion binding]; other site 311402016645 G-X-G motif; other site 311402016646 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 311402016647 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 311402016648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402016649 active site 311402016650 phosphorylation site [posttranslational modification] 311402016651 intermolecular recognition site; other site 311402016652 dimerization interface [polypeptide binding]; other site 311402016653 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 311402016654 anti sigma factor interaction site; other site 311402016655 regulatory phosphorylation site [posttranslational modification]; other site 311402016656 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 311402016657 heme-binding site [chemical binding]; other site 311402016658 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402016659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402016660 dimer interface [polypeptide binding]; other site 311402016661 putative CheW interface [polypeptide binding]; other site 311402016662 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 311402016663 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 311402016664 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 311402016665 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 311402016666 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 311402016667 Beta-lactamase; Region: Beta-lactamase; pfam00144 311402016668 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 311402016669 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 311402016670 substrate-cofactor binding pocket; other site 311402016671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402016672 catalytic residue [active] 311402016673 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 311402016674 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 311402016675 Surface antigen; Region: Bac_surface_Ag; pfam01103 311402016676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 311402016677 Family of unknown function (DUF490); Region: DUF490; pfam04357 311402016678 Family of unknown function (DUF490); Region: DUF490; pfam04357 311402016679 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402016680 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 311402016681 putative active site [active] 311402016682 heme pocket [chemical binding]; other site 311402016683 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 311402016684 putative active site [active] 311402016685 heme pocket [chemical binding]; other site 311402016686 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402016687 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402016688 dimer interface [polypeptide binding]; other site 311402016689 putative CheW interface [polypeptide binding]; other site 311402016690 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 311402016691 putative CheA interaction surface; other site 311402016692 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402016693 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 311402016694 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 311402016695 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 311402016696 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 311402016697 catalytic loop [active] 311402016698 iron binding site [ion binding]; other site 311402016699 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 311402016700 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 311402016701 [4Fe-4S] binding site [ion binding]; other site 311402016702 molybdopterin cofactor binding site; other site 311402016703 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 311402016704 molybdopterin cofactor binding site; other site 311402016705 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 311402016706 putative dimer interface [polypeptide binding]; other site 311402016707 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 311402016708 SLBB domain; Region: SLBB; pfam10531 311402016709 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 311402016710 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 311402016711 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 311402016712 putative dimer interface [polypeptide binding]; other site 311402016713 [2Fe-2S] cluster binding site [ion binding]; other site 311402016714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 311402016715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 311402016716 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 311402016717 dimerization interface [polypeptide binding]; other site 311402016718 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402016719 putative DNA binding site [nucleotide binding]; other site 311402016720 putative Zn2+ binding site [ion binding]; other site 311402016721 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 311402016722 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 311402016723 NAD(P) binding site [chemical binding]; other site 311402016724 LDH/MDH dimer interface [polypeptide binding]; other site 311402016725 substrate binding site [chemical binding]; other site 311402016726 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 311402016727 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 311402016728 gamma subunit interface [polypeptide binding]; other site 311402016729 epsilon subunit interface [polypeptide binding]; other site 311402016730 LBP interface [polypeptide binding]; other site 311402016731 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 311402016732 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 311402016733 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 311402016734 alpha subunit interaction interface [polypeptide binding]; other site 311402016735 Walker A motif; other site 311402016736 ATP binding site [chemical binding]; other site 311402016737 Walker B motif; other site 311402016738 inhibitor binding site; inhibition site 311402016739 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 311402016740 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 311402016741 core domain interface [polypeptide binding]; other site 311402016742 delta subunit interface [polypeptide binding]; other site 311402016743 epsilon subunit interface [polypeptide binding]; other site 311402016744 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 311402016745 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 311402016746 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 311402016747 beta subunit interaction interface [polypeptide binding]; other site 311402016748 Walker A motif; other site 311402016749 ATP binding site [chemical binding]; other site 311402016750 Walker B motif; other site 311402016751 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 311402016752 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 311402016753 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 311402016754 primosome assembly protein PriA; Validated; Region: PRK05580 311402016755 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 311402016756 ATP binding site [chemical binding]; other site 311402016757 putative Mg++ binding site [ion binding]; other site 311402016758 helicase superfamily c-terminal domain; Region: HELICc; smart00490 311402016759 nucleotide binding region [chemical binding]; other site 311402016760 ATP-binding site [chemical binding]; other site 311402016761 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402016762 dimerization interface [polypeptide binding]; other site 311402016763 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 311402016764 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402016765 dimer interface [polypeptide binding]; other site 311402016766 putative CheW interface [polypeptide binding]; other site 311402016767 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 311402016768 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402016769 active site 311402016770 DNA binding site [nucleotide binding] 311402016771 Int/Topo IB signature motif; other site 311402016772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 311402016773 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 311402016774 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 311402016775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 311402016776 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 311402016777 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402016778 Predicted membrane protein [Function unknown]; Region: COG3686 311402016779 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 311402016780 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 311402016781 E3 interaction surface; other site 311402016782 lipoyl attachment site [posttranslational modification]; other site 311402016783 e3 binding domain; Region: E3_binding; pfam02817 311402016784 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 311402016785 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 311402016786 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 311402016787 TPP-binding site [chemical binding]; other site 311402016788 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 311402016789 PYR/PP interface [polypeptide binding]; other site 311402016790 dimer interface [polypeptide binding]; other site 311402016791 TPP binding site [chemical binding]; other site 311402016792 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 311402016793 CoA binding domain; Region: CoA_binding; smart00881 311402016794 CoA-ligase; Region: Ligase_CoA; pfam00549 311402016795 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 311402016796 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 311402016797 CoA-ligase; Region: Ligase_CoA; pfam00549 311402016798 malate dehydrogenase; Reviewed; Region: PRK06223 311402016799 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 311402016800 NAD(P) binding site [chemical binding]; other site 311402016801 dimer interface [polypeptide binding]; other site 311402016802 tetramer (dimer of dimers) interface [polypeptide binding]; other site 311402016803 substrate binding site [chemical binding]; other site 311402016804 Predicted ATPase [General function prediction only]; Region: COG1485 311402016805 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402016806 Walker A/P-loop; other site 311402016807 ATP binding site [chemical binding]; other site 311402016808 ABC transporter signature motif; other site 311402016809 Walker B; other site 311402016810 D-loop; other site 311402016811 H-loop/switch region; other site 311402016812 Protease inhibitor Inh; Region: Inh; pfam02974 311402016813 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 311402016814 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 311402016815 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 311402016816 L-aspartate oxidase; Provisional; Region: PRK06175 311402016817 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 311402016818 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 311402016819 putative SdhC subunit interface [polypeptide binding]; other site 311402016820 putative proximal heme binding site [chemical binding]; other site 311402016821 putative Iron-sulfur protein interface [polypeptide binding]; other site 311402016822 putative proximal quinone binding site; other site 311402016823 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 311402016824 Iron-sulfur protein interface; other site 311402016825 proximal quinone binding site [chemical binding]; other site 311402016826 SdhD (CybS) interface [polypeptide binding]; other site 311402016827 proximal heme binding site [chemical binding]; other site 311402016828 Predicted methyltransferase [General function prediction only]; Region: COG3897 311402016829 Uncharacterized conserved protein [Function unknown]; Region: COG2947 311402016830 YciI-like protein; Reviewed; Region: PRK12865 311402016831 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 311402016832 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 311402016833 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 311402016834 UGMP family protein; Validated; Region: PRK09604 311402016835 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 311402016836 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 311402016837 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 311402016838 domain interfaces; other site 311402016839 active site 311402016840 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 311402016841 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 311402016842 active site 311402016843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 311402016844 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 311402016845 HemY protein N-terminus; Region: HemY_N; pfam07219 311402016846 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 311402016847 putative metal binding site [ion binding]; other site 311402016848 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 311402016849 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 311402016850 catalytic triad [active] 311402016851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402016852 putative substrate translocation pore; other site 311402016853 enterobactin exporter EntS; Provisional; Region: PRK10489 311402016854 YGGT family; Region: YGGT; pfam02325 311402016855 hypothetical protein; Validated; Region: PRK01310 311402016856 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 311402016857 dimer interface [polypeptide binding]; other site 311402016858 substrate binding site [chemical binding]; other site 311402016859 metal binding sites [ion binding]; metal-binding site 311402016860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402016861 Coenzyme A binding pocket [chemical binding]; other site 311402016862 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 311402016863 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 311402016864 G1 box; other site 311402016865 putative GEF interaction site [polypeptide binding]; other site 311402016866 GTP/Mg2+ binding site [chemical binding]; other site 311402016867 Switch I region; other site 311402016868 G2 box; other site 311402016869 G3 box; other site 311402016870 Switch II region; other site 311402016871 G4 box; other site 311402016872 G5 box; other site 311402016873 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 311402016874 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 311402016875 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 311402016876 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 311402016877 putative active site [active] 311402016878 putative metal binding site [ion binding]; other site 311402016879 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 311402016880 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 311402016881 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 311402016882 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 311402016883 active site 311402016884 Zn binding site [ion binding]; other site 311402016885 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 311402016886 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402016887 putative substrate translocation pore; other site 311402016888 argininosuccinate synthase; Provisional; Region: PRK13820 311402016889 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 311402016890 ANP binding site [chemical binding]; other site 311402016891 Substrate Binding Site II [chemical binding]; other site 311402016892 Substrate Binding Site I [chemical binding]; other site 311402016893 classical (c) SDRs; Region: SDR_c; cd05233 311402016894 NAD(P) binding site [chemical binding]; other site 311402016895 active site 311402016896 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402016897 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 311402016898 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402016899 FeS/SAM binding site; other site 311402016900 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 311402016901 Uncharacterized conserved protein [Function unknown]; Region: COG3339 311402016902 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 311402016903 aromatic arch; other site 311402016904 DCoH dimer interaction site [polypeptide binding]; other site 311402016905 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 311402016906 DCoH tetramer interaction site [polypeptide binding]; other site 311402016907 substrate binding site [chemical binding]; other site 311402016908 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 311402016909 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 311402016910 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 311402016911 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 311402016912 active site 311402016913 catalytic triad [active] 311402016914 oxyanion hole [active] 311402016915 switch loop; other site 311402016916 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 311402016917 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 311402016918 Walker A/P-loop; other site 311402016919 ATP binding site [chemical binding]; other site 311402016920 Q-loop/lid; other site 311402016921 ABC transporter signature motif; other site 311402016922 Walker B; other site 311402016923 D-loop; other site 311402016924 H-loop/switch region; other site 311402016925 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 311402016926 FtsX-like permease family; Region: FtsX; pfam02687 311402016927 ybhL leader; predicted by Infernal 311402016928 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 311402016929 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 311402016930 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 311402016931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402016932 Coenzyme A binding pocket [chemical binding]; other site 311402016933 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 311402016934 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 311402016935 aconitate hydratase; Validated; Region: PRK09277 311402016936 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 311402016937 substrate binding site [chemical binding]; other site 311402016938 ligand binding site [chemical binding]; other site 311402016939 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 311402016940 substrate binding site [chemical binding]; other site 311402016941 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 311402016942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402016943 Walker A/P-loop; other site 311402016944 ATP binding site [chemical binding]; other site 311402016945 Q-loop/lid; other site 311402016946 ABC transporter signature motif; other site 311402016947 Walker B; other site 311402016948 D-loop; other site 311402016949 H-loop/switch region; other site 311402016950 heme exporter protein CcmB; Region: ccmB; TIGR01190 311402016951 heme exporter protein CcmC; Region: ccmC; TIGR01191 311402016952 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 311402016953 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 311402016954 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 311402016955 catalytic residues [active] 311402016956 central insert; other site 311402016957 hypothetical protein; Provisional; Region: PRK00944 311402016958 intracellular septation protein A; Reviewed; Region: PRK00259 311402016959 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 311402016960 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 311402016961 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311402016962 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 311402016963 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 311402016964 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 311402016965 FeS/SAM binding site; other site 311402016966 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 311402016967 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 311402016968 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 311402016969 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 311402016970 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 311402016971 signal recognition particle protein; Provisional; Region: PRK10867 311402016972 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 311402016973 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 311402016974 P loop; other site 311402016975 GTP binding site [chemical binding]; other site 311402016976 Signal peptide binding domain; Region: SRP_SPB; pfam02978 311402016977 chorismate mutase; Provisional; Region: PRK09239 311402016978 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 311402016979 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 311402016980 RimM N-terminal domain; Region: RimM; pfam01782 311402016981 PRC-barrel domain; Region: PRC; pfam05239 311402016982 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 311402016983 Predicted permeases [General function prediction only]; Region: COG0730 311402016984 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 311402016985 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 311402016986 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 311402016987 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 311402016988 CopC domain; Region: CopC; pfam04234 311402016989 Copper resistance protein D; Region: CopD; cl00563 311402016990 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 311402016991 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 311402016992 substrate binding pocket [chemical binding]; other site 311402016993 membrane-bound complex binding site; other site 311402016994 hinge residues; other site 311402016995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402016996 dimer interface [polypeptide binding]; other site 311402016997 conserved gate region; other site 311402016998 putative PBP binding loops; other site 311402016999 ABC-ATPase subunit interface; other site 311402017000 Tetratricopeptide repeat; Region: TPR_16; pfam13432 311402017001 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 311402017002 TPR motif; other site 311402017003 binding surface 311402017004 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 311402017005 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 311402017006 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 311402017007 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 311402017008 substrate binding site [chemical binding]; other site 311402017009 ligand binding site [chemical binding]; other site 311402017010 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 311402017011 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 311402017012 active site 311402017013 catalytic tetrad [active] 311402017014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 311402017015 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 311402017016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402017017 active site 311402017018 phosphorylation site [posttranslational modification] 311402017019 intermolecular recognition site; other site 311402017020 dimerization interface [polypeptide binding]; other site 311402017021 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 311402017022 DNA binding site [nucleotide binding] 311402017023 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 311402017024 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 311402017025 ligand binding site [chemical binding]; other site 311402017026 flexible hinge region; other site 311402017027 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 311402017028 active site 311402017029 NTP binding site [chemical binding]; other site 311402017030 metal binding triad [ion binding]; metal-binding site 311402017031 antibiotic binding site [chemical binding]; other site 311402017032 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 311402017033 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 311402017034 putative catalytic site [active] 311402017035 putative phosphate binding site [ion binding]; other site 311402017036 active site 311402017037 metal binding site A [ion binding]; metal-binding site 311402017038 DNA binding site [nucleotide binding] 311402017039 putative AP binding site [nucleotide binding]; other site 311402017040 putative metal binding site B [ion binding]; other site 311402017041 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 311402017042 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 311402017043 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 311402017044 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 311402017045 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 311402017046 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 311402017047 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 311402017048 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 311402017049 Nitrogen regulatory protein P-II; Region: P-II; smart00938 311402017050 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 311402017051 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 311402017052 active site 311402017053 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 311402017054 catalytic triad [active] 311402017055 dimer interface [polypeptide binding]; other site 311402017056 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 311402017057 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 311402017058 Uncharacterized conserved protein [Function unknown]; Region: COG2835 311402017059 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 311402017060 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 311402017061 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 311402017062 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402017063 TPR motif; other site 311402017064 binding surface 311402017065 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 311402017066 putative deacylase active site [active] 311402017067 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 311402017068 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402017069 putative substrate translocation pore; other site 311402017070 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 311402017071 active site 311402017072 catalytic residues [active] 311402017073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 311402017074 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 311402017075 Coenzyme A binding pocket [chemical binding]; other site 311402017076 homoserine O-succinyltransferase; Provisional; Region: PRK05368 311402017077 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 311402017078 proposed active site lysine [active] 311402017079 conserved cys residue [active] 311402017080 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 311402017081 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402017082 Walker A motif; other site 311402017083 ATP binding site [chemical binding]; other site 311402017084 Walker B motif; other site 311402017085 arginine finger; other site 311402017086 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 311402017087 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 311402017088 Thiamine pyrophosphokinase; Region: TPK; cd07995 311402017089 active site 311402017090 dimerization interface [polypeptide binding]; other site 311402017091 thiamine binding site [chemical binding]; other site 311402017092 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 311402017093 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402017094 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 311402017095 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 311402017096 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 311402017097 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 311402017098 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 311402017099 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 311402017100 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 311402017101 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402017102 dimer interface [polypeptide binding]; other site 311402017103 conserved gate region; other site 311402017104 ABC-ATPase subunit interface; other site 311402017105 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 311402017106 putative PBP binding loops; other site 311402017107 ABC-ATPase subunit interface; other site 311402017108 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 311402017109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402017110 Walker A/P-loop; other site 311402017111 ATP binding site [chemical binding]; other site 311402017112 Q-loop/lid; other site 311402017113 ABC transporter signature motif; other site 311402017114 Walker B; other site 311402017115 D-loop; other site 311402017116 H-loop/switch region; other site 311402017117 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 311402017118 Peptidase family M48; Region: Peptidase_M48; pfam01435 311402017119 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 311402017120 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 311402017121 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 311402017122 DNA binding residues [nucleotide binding] 311402017123 heat shock protein 90; Provisional; Region: PRK05218 311402017124 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402017125 ATP binding site [chemical binding]; other site 311402017126 Mg2+ binding site [ion binding]; other site 311402017127 G-X-G motif; other site 311402017128 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 311402017129 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 311402017130 heme binding site [chemical binding]; other site 311402017131 ferroxidase pore; other site 311402017132 ferroxidase diiron center [ion binding]; other site 311402017133 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 311402017134 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 311402017135 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 311402017136 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 311402017137 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 311402017138 active site 311402017139 (T/H)XGH motif; other site 311402017140 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 311402017141 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 311402017142 putative catalytic cysteine [active] 311402017143 gamma-glutamyl kinase; Provisional; Region: PRK05429 311402017144 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 311402017145 nucleotide binding site [chemical binding]; other site 311402017146 homotetrameric interface [polypeptide binding]; other site 311402017147 putative phosphate binding site [ion binding]; other site 311402017148 putative allosteric binding site; other site 311402017149 PUA domain; Region: PUA; pfam01472 311402017150 GTPase CgtA; Reviewed; Region: obgE; PRK12299 311402017151 GTP1/OBG; Region: GTP1_OBG; pfam01018 311402017152 Obg GTPase; Region: Obg; cd01898 311402017153 G1 box; other site 311402017154 GTP/Mg2+ binding site [chemical binding]; other site 311402017155 Switch I region; other site 311402017156 G2 box; other site 311402017157 G3 box; other site 311402017158 Switch II region; other site 311402017159 G4 box; other site 311402017160 G5 box; other site 311402017161 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 311402017162 putative catalytic site [active] 311402017163 putative metal binding site [ion binding]; other site 311402017164 putative phosphate binding site [ion binding]; other site 311402017165 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402017166 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402017167 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 311402017168 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 311402017169 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 311402017170 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 311402017171 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 311402017172 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 311402017173 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 311402017174 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 311402017175 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 311402017176 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 311402017177 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 311402017178 purine monophosphate binding site [chemical binding]; other site 311402017179 dimer interface [polypeptide binding]; other site 311402017180 putative catalytic residues [active] 311402017181 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 311402017182 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 311402017183 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 311402017184 NusB family; Region: NusB; pfam01029 311402017185 putative RNA binding site [nucleotide binding]; other site 311402017186 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 311402017187 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 311402017188 heat shock protein HtpX; Provisional; Region: PRK01345 311402017189 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 311402017190 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 311402017191 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 311402017192 Peptidase family M23; Region: Peptidase_M23; pfam01551 311402017193 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 311402017194 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 311402017195 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 311402017196 protein binding site [polypeptide binding]; other site 311402017197 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 311402017198 Catalytic dyad [active] 311402017199 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 311402017200 NodB motif; other site 311402017201 putative active site [active] 311402017202 putative catalytic site [active] 311402017203 Zn binding site [ion binding]; other site 311402017204 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 311402017205 putative active site [active] 311402017206 Ap4A binding site [chemical binding]; other site 311402017207 nudix motif; other site 311402017208 putative metal binding site [ion binding]; other site 311402017209 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 311402017210 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402017211 P-loop; other site 311402017212 Magnesium ion binding site [ion binding]; other site 311402017213 Predicted transcriptional regulators [Transcription]; Region: COG1695 311402017214 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 311402017215 Predicted membrane protein [Function unknown]; Region: COG4709 311402017216 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 311402017217 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 311402017218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402017219 active site 311402017220 phosphorylation site [posttranslational modification] 311402017221 intermolecular recognition site; other site 311402017222 dimerization interface [polypeptide binding]; other site 311402017223 CheB methylesterase; Region: CheB_methylest; pfam01339 311402017224 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 311402017225 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 311402017226 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 311402017227 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 311402017228 putative CheA interaction surface; other site 311402017229 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402017230 HAMP domain; Region: HAMP; pfam00672 311402017231 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402017232 dimer interface [polypeptide binding]; other site 311402017233 putative CheW interface [polypeptide binding]; other site 311402017234 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402017235 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402017236 dimerization interface [polypeptide binding]; other site 311402017237 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 311402017238 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402017239 dimer interface [polypeptide binding]; other site 311402017240 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 311402017241 putative CheW interface [polypeptide binding]; other site 311402017242 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 311402017243 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 311402017244 dimerization interface [polypeptide binding]; other site 311402017245 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 311402017246 dimer interface [polypeptide binding]; other site 311402017247 putative CheW interface [polypeptide binding]; other site 311402017248 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 311402017249 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 311402017250 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 311402017251 putative binding surface; other site 311402017252 active site 311402017253 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 311402017254 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 311402017255 ATP binding site [chemical binding]; other site 311402017256 Mg2+ binding site [ion binding]; other site 311402017257 G-X-G motif; other site 311402017258 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 311402017259 Response regulator receiver domain; Region: Response_reg; pfam00072 311402017260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402017261 active site 311402017262 phosphorylation site [posttranslational modification] 311402017263 intermolecular recognition site; other site 311402017264 dimerization interface [polypeptide binding]; other site 311402017265 STAS domain; Region: STAS_2; pfam13466 311402017266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 311402017267 active site 311402017268 phosphorylation site [posttranslational modification] 311402017269 intermolecular recognition site; other site 311402017270 dimerization interface [polypeptide binding]; other site 311402017271 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 311402017272 Zn2+ binding site [ion binding]; other site 311402017273 Mg2+ binding site [ion binding]; other site 311402017274 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 311402017275 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 311402017276 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 311402017277 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 311402017278 Glutamate binding site [chemical binding]; other site 311402017279 NAD binding site [chemical binding]; other site 311402017280 catalytic residues [active] 311402017281 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 311402017282 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 311402017283 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 311402017284 putative DNA binding site [nucleotide binding]; other site 311402017285 dimerization interface [polypeptide binding]; other site 311402017286 putative Zn2+ binding site [ion binding]; other site 311402017287 AsnC family; Region: AsnC_trans_reg; pfam01037 311402017288 Uncharacterized conserved protein [Function unknown]; Region: COG1739 311402017289 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 311402017290 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 311402017291 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 311402017292 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 311402017293 putative NAD(P) binding site [chemical binding]; other site 311402017294 homotetramer interface [polypeptide binding]; other site 311402017295 active site 311402017296 homodimer interface [polypeptide binding]; other site 311402017297 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 311402017298 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 311402017299 substrate-cofactor binding pocket; other site 311402017300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402017301 catalytic residue [active] 311402017302 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 311402017303 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 311402017304 active site 311402017305 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 311402017306 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 311402017307 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 311402017308 Enoylreductase; Region: PKS_ER; smart00829 311402017309 NAD(P) binding site [chemical binding]; other site 311402017310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 311402017311 KR domain; Region: KR; pfam08659 311402017312 NAD(P) binding site [chemical binding]; other site 311402017313 active site 311402017314 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402017315 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402017316 Major Facilitator Superfamily; Region: MFS_1; pfam07690 311402017317 putative substrate translocation pore; other site 311402017318 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 311402017319 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 311402017320 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 311402017321 putative outer membrane lipoprotein; Provisional; Region: PRK10510 311402017322 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 311402017323 ligand binding site [chemical binding]; other site 311402017324 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 311402017325 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 311402017326 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 311402017327 substrate binding pocket [chemical binding]; other site 311402017328 chain length determination region; other site 311402017329 substrate-Mg2+ binding site; other site 311402017330 catalytic residues [active] 311402017331 aspartate-rich region 1; other site 311402017332 active site lid residues [active] 311402017333 aspartate-rich region 2; other site 311402017334 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 311402017335 Transglycosylase; Region: Transgly; cl17702 311402017336 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 311402017337 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 311402017338 putative C-terminal domain interface [polypeptide binding]; other site 311402017339 putative GSH binding site (G-site) [chemical binding]; other site 311402017340 putative dimer interface [polypeptide binding]; other site 311402017341 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 311402017342 putative N-terminal domain interface [polypeptide binding]; other site 311402017343 putative dimer interface [polypeptide binding]; other site 311402017344 putative substrate binding pocket (H-site) [chemical binding]; other site 311402017345 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 311402017346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 311402017347 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 311402017348 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 311402017349 putative acyltransferase; Provisional; Region: PRK05790 311402017350 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 311402017351 dimer interface [polypeptide binding]; other site 311402017352 active site 311402017353 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 311402017354 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 311402017355 NAD(P) binding site [chemical binding]; other site 311402017356 homotetramer interface [polypeptide binding]; other site 311402017357 homodimer interface [polypeptide binding]; other site 311402017358 active site 311402017359 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 311402017360 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 311402017361 ATP binding site [chemical binding]; other site 311402017362 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 311402017363 putative Mg++ binding site [ion binding]; other site 311402017364 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 311402017365 nucleotide binding region [chemical binding]; other site 311402017366 ATP-binding site [chemical binding]; other site 311402017367 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 311402017368 RNA binding surface [nucleotide binding]; other site 311402017369 Ferredoxin [Energy production and conversion]; Region: COG1146 311402017370 4Fe-4S binding domain; Region: Fer4; pfam00037 311402017371 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 311402017372 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 311402017373 methyl-accepting protein IV; Provisional; Region: PRK09793 311402017374 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 311402017375 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 311402017376 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 311402017377 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 311402017378 substrate binding site [chemical binding]; other site 311402017379 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 311402017380 tartrate dehydrogenase; Region: TTC; TIGR02089 311402017381 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 311402017382 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 311402017383 active site 311402017384 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 311402017385 putative substrate translocation pore; other site 311402017386 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 311402017387 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 311402017388 Transglycosylase SLT domain; Region: SLT_2; pfam13406 311402017389 murein hydrolase B; Provisional; Region: PRK10760; cl17906 311402017390 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 311402017391 N-acetyl-D-glucosamine binding site [chemical binding]; other site 311402017392 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 311402017393 active site clefts [active] 311402017394 zinc binding site [ion binding]; other site 311402017395 dimer interface [polypeptide binding]; other site 311402017396 pyridoxamine kinase; Validated; Region: PRK05756 311402017397 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 311402017398 pyridoxal binding site [chemical binding]; other site 311402017399 dimer interface [polypeptide binding]; other site 311402017400 ATP binding site [chemical binding]; other site 311402017401 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 311402017402 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 311402017403 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 311402017404 Putative glucoamylase; Region: Glycoamylase; pfam10091 311402017405 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 311402017406 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 311402017407 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 311402017408 Protein of unknown function, DUF608; Region: DUF608; pfam04685 311402017409 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 311402017410 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 311402017411 metal binding site [ion binding]; metal-binding site 311402017412 putative dimer interface [polypeptide binding]; other site 311402017413 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 311402017414 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402017415 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 311402017416 Walker A/P-loop; other site 311402017417 ATP binding site [chemical binding]; other site 311402017418 Q-loop/lid; other site 311402017419 ABC transporter signature motif; other site 311402017420 Walker B; other site 311402017421 D-loop; other site 311402017422 H-loop/switch region; other site 311402017423 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402017424 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402017425 DNA binding residues [nucleotide binding] 311402017426 dimerization interface [polypeptide binding]; other site 311402017427 pyruvate carboxylase; Reviewed; Region: PRK12999 311402017428 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 311402017429 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 311402017430 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 311402017431 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 311402017432 active site 311402017433 catalytic residues [active] 311402017434 metal binding site [ion binding]; metal-binding site 311402017435 homodimer binding site [polypeptide binding]; other site 311402017436 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 311402017437 carboxyltransferase (CT) interaction site; other site 311402017438 biotinylation site [posttranslational modification]; other site 311402017439 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 311402017440 acetyl-CoA synthetase; Provisional; Region: PRK00174 311402017441 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 311402017442 active site 311402017443 CoA binding site [chemical binding]; other site 311402017444 acyl-activating enzyme (AAE) consensus motif; other site 311402017445 AMP binding site [chemical binding]; other site 311402017446 acetate binding site [chemical binding]; other site 311402017447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 311402017448 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 311402017449 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 311402017450 catalytic residue [active] 311402017451 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 311402017452 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 311402017453 HIGH motif; other site 311402017454 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 311402017455 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 311402017456 active site 311402017457 KMSKS motif; other site 311402017458 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 311402017459 tRNA binding surface [nucleotide binding]; other site 311402017460 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 311402017461 Lipopolysaccharide-assembly; Region: LptE; cl01125 311402017462 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 311402017463 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 311402017464 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 311402017465 ParB-like nuclease domain; Region: ParBc; pfam02195 311402017466 KorB domain; Region: KorB; pfam08535 311402017467 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 311402017468 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402017469 P-loop; other site 311402017470 Magnesium ion binding site [ion binding]; other site 311402017471 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 311402017472 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 311402017473 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 311402017474 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 311402017475 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 311402017476 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 311402017477 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 311402017478 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 311402017479 trmE is a tRNA modification GTPase; Region: trmE; cd04164 311402017480 G1 box; other site 311402017481 GTP/Mg2+ binding site [chemical binding]; other site 311402017482 Switch I region; other site 311402017483 G2 box; other site 311402017484 Switch II region; other site 311402017485 G3 box; other site 311402017486 G4 box; other site 311402017487 G5 box; other site 311402017488 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 311402017489 transcription termination factor Rho; Provisional; Region: rho; PRK09376 311402017490 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 311402017491 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 311402017492 RNA binding site [nucleotide binding]; other site 311402017493 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 311402017494 multimer interface [polypeptide binding]; other site 311402017495 Walker A motif; other site 311402017496 ATP binding site [chemical binding]; other site 311402017497 Walker B motif; other site 311402017498 Predicted membrane protein [Function unknown]; Region: COG1981 311402017499 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 311402017500 substrate binding site [chemical binding]; other site 311402017501 active site 311402017502 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 311402017503 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402017504 P-loop; other site 311402017505 Magnesium ion binding site [ion binding]; other site 311402017506 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 311402017507 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 311402017508 Magnesium ion binding site [ion binding]; other site 311402017509 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 311402017510 ParB-like nuclease domain; Region: ParB; smart00470 311402017511 replication initiation protein RepC; Provisional; Region: PRK13824 311402017512 Replication protein C N-terminal domain; Region: RP-C; pfam03428 311402017513 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 311402017514 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 311402017515 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 311402017516 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 311402017517 metal binding site [ion binding]; metal-binding site 311402017518 active site 311402017519 I-site; other site 311402017520 RES domain; Region: RES; cl02411 311402017521 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 311402017522 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 311402017523 active site 311402017524 DNA binding site [nucleotide binding] 311402017525 Int/Topo IB signature motif; other site 311402017526 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 311402017527 putative active site [active] 311402017528 homotetrameric interface [polypeptide binding]; other site 311402017529 metal binding site [ion binding]; metal-binding site 311402017530 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 311402017531 HTH DNA binding domain; Region: HTH_13; pfam11972 311402017532 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 311402017533 rRNA interaction site [nucleotide binding]; other site 311402017534 S8 interaction site; other site 311402017535 putative laminin-1 binding site; other site 311402017536 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 311402017537 binding surface 311402017538 Tetratricopeptide repeat; Region: TPR_16; pfam13432 311402017539 TPR motif; other site 311402017540 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 311402017541 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 311402017542 SIR2-like domain; Region: SIR2_2; pfam13289 311402017543 Uncharacterized conserved protein [Function unknown]; Region: COG1479 311402017544 Protein of unknown function DUF262; Region: DUF262; pfam03235 311402017545 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 311402017546 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar5; cd09133 311402017547 putative active site [active] 311402017548 putative catalytic site [active] 311402017549 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 311402017550 PLD-like domain; Region: PLDc_2; pfam13091 311402017551 putative active site [active] 311402017552 catalytic site [active] 311402017553 AAA domain; Region: AAA_11; pfam13086 311402017554 Part of AAA domain; Region: AAA_19; pfam13245 311402017555 AAA domain; Region: AAA_12; pfam13087 311402017556 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 311402017557 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 311402017558 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 311402017559 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402017560 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402017561 non-specific DNA binding site [nucleotide binding]; other site 311402017562 salt bridge; other site 311402017563 sequence-specific DNA binding site [nucleotide binding]; other site 311402017564 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402017565 non-specific DNA binding site [nucleotide binding]; other site 311402017566 salt bridge; other site 311402017567 sequence-specific DNA binding site [nucleotide binding]; other site 311402017568 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 311402017569 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 311402017570 active site 311402017571 metal binding site [ion binding]; metal-binding site 311402017572 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 311402017573 serC leader; predicted by Infernal 311402017574 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 311402017575 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 311402017576 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402017577 S-adenosylmethionine binding site [chemical binding]; other site 311402017578 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 311402017579 DEAD-like helicases superfamily; Region: DEXDc; smart00487 311402017580 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 311402017581 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 311402017582 helicase superfamily c-terminal domain; Region: HELICc; smart00490 311402017583 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 311402017584 DNA-binding site [nucleotide binding]; DNA binding site 311402017585 RNA-binding motif; other site 311402017586 RES domain; Region: RES; cl02411 311402017587 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 311402017588 plasmid partitioning protein; Provisional; Region: PRK13832 311402017589 ParB-like nuclease domain; Region: ParB; smart00470 311402017590 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 311402017591 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 311402017592 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 311402017593 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 311402017594 Protein of unknown function (DUF736); Region: DUF736; pfam05284 311402017595 Fic/DOC family; Region: Fic; cl00960 311402017596 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 311402017597 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 311402017598 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 311402017599 Walker A motif; other site 311402017600 ATP binding site [chemical binding]; other site 311402017601 Walker B motif; other site 311402017602 Conjugal transfer protein TraD; Region: TraD; pfam06412 311402017603 TraC-like protein; Region: TraC; cl06725 311402017604 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 311402017605 MobA/MobL family; Region: MobA_MobL; pfam03389 311402017606 AAA domain; Region: AAA_30; pfam13604 311402017607 Family description; Region: UvrD_C_2; pfam13538 311402017608 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 311402017609 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 311402017610 conjugal transfer protein TraB; Provisional; Region: PRK13825 311402017611 active site 311402017612 catalytic triad [active] 311402017613 conjugal transfer protein TraH; Provisional; Region: PRK13843 311402017614 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 311402017615 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 311402017616 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 311402017617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 311402017618 homodimer interface [polypeptide binding]; other site 311402017619 catalytic residue [active] 311402017620 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 311402017621 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 311402017622 active site 311402017623 catalytic residues [active] 311402017624 metal binding site [ion binding]; metal-binding site 311402017625 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 311402017626 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 311402017627 NAD binding site [chemical binding]; other site 311402017628 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 311402017629 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 311402017630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402017631 Walker A/P-loop; other site 311402017632 ATP binding site [chemical binding]; other site 311402017633 Q-loop/lid; other site 311402017634 ABC transporter signature motif; other site 311402017635 Walker B; other site 311402017636 D-loop; other site 311402017637 H-loop/switch region; other site 311402017638 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 311402017639 Transcriptional regulators [Transcription]; Region: GntR; COG1802 311402017640 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 311402017641 DNA-binding site [nucleotide binding]; DNA binding site 311402017642 Transposase; Region: HTH_Tnp_IS630; pfam01710 311402017643 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 311402017644 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 311402017645 Walker A motif; other site 311402017646 ATP binding site [chemical binding]; other site 311402017647 Walker B motif; other site 311402017648 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 311402017649 Homeodomain-like domain; Region: HTH_23; pfam13384 311402017650 Transposase; Region: HTH_Tnp_1; pfam01527 311402017651 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 311402017652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402017653 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 311402017654 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 311402017655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 311402017656 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 311402017657 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 311402017658 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 311402017659 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402017660 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 311402017661 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 311402017662 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 311402017663 CysD dimerization site [polypeptide binding]; other site 311402017664 G1 box; other site 311402017665 putative GEF interaction site [polypeptide binding]; other site 311402017666 GTP/Mg2+ binding site [chemical binding]; other site 311402017667 Switch I region; other site 311402017668 G2 box; other site 311402017669 G3 box; other site 311402017670 Switch II region; other site 311402017671 G4 box; other site 311402017672 G5 box; other site 311402017673 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 311402017674 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 311402017675 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 311402017676 ligand-binding site [chemical binding]; other site 311402017677 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 311402017678 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 311402017679 Active Sites [active] 311402017680 substrate binding pocket [chemical binding]; other site 311402017681 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 311402017682 active site 311402017683 iron coordination sites [ion binding]; other site 311402017684 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 311402017685 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 311402017686 substrate binding site [chemical binding]; other site 311402017687 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 311402017688 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 311402017689 substrate binding site [chemical binding]; other site 311402017690 ligand binding site [chemical binding]; other site 311402017691 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 311402017692 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 311402017693 N-terminal formyl transferase catalytic core domain of NRPS_like proteins, one of the proteins involved in the synthesis of Oxazolomycin; Region: FMT_core_NRPS_like; cd08649 311402017694 putative active site [active] 311402017695 putative substrate binding site [chemical binding]; other site 311402017696 putative cosubstrate binding site; other site 311402017697 catalytic site [active] 311402017698 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 311402017699 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 311402017700 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 311402017701 acyl-activating enzyme (AAE) consensus motif; other site 311402017702 AMP binding site [chemical binding]; other site 311402017703 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402017704 Condensation domain; Region: Condensation; pfam00668 311402017705 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 311402017706 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 311402017707 acyl-activating enzyme (AAE) consensus motif; other site 311402017708 AMP binding site [chemical binding]; other site 311402017709 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402017710 Condensation domain; Region: Condensation; pfam00668 311402017711 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402017712 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 311402017713 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 311402017714 acyl-activating enzyme (AAE) consensus motif; other site 311402017715 AMP binding site [chemical binding]; other site 311402017716 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 311402017717 S-adenosylmethionine binding site [chemical binding]; other site 311402017718 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 311402017719 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402017720 Condensation domain; Region: Condensation; pfam00668 311402017721 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402017722 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 311402017723 acyl-activating enzyme (AAE) consensus motif; other site 311402017724 AMP binding site [chemical binding]; other site 311402017725 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402017726 Condensation domain; Region: Condensation; pfam00668 311402017727 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402017728 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 311402017729 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 311402017730 acyl-activating enzyme (AAE) consensus motif; other site 311402017731 AMP binding site [chemical binding]; other site 311402017732 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 311402017733 Condensation domain; Region: Condensation; pfam00668 311402017734 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 311402017735 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 311402017736 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 311402017737 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 311402017738 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 311402017739 non-specific DNA binding site [nucleotide binding]; other site 311402017740 salt bridge; other site 311402017741 sequence-specific DNA binding site [nucleotide binding]; other site 311402017742 conjugal transfer protein TrbI; Provisional; Region: PRK13831 311402017743 conjugal transfer protein TrbH; Provisional; Region: PRK13835 311402017744 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 311402017745 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 311402017746 VirB7 interaction site; other site 311402017747 conjugal transfer protein TrbF; Provisional; Region: PRK13836 311402017748 conjugal transfer protein TrbL; Provisional; Region: PRK13841 311402017749 conjugal transfer protein TrbJ; Provisional; Region: PRK13842 311402017750 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 311402017751 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 311402017752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402017753 AAA-like domain; Region: AAA_10; pfam12846 311402017754 Walker A/P-loop; other site 311402017755 ATP binding site [chemical binding]; other site 311402017756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 311402017757 Walker B; other site 311402017758 D-loop; other site 311402017759 H-loop/switch region; other site 311402017760 conjugal transfer protein TrbD; Provisional; Region: PRK13823 311402017761 conjugal transfer protein TrbC; Provisional; Region: PRK13871 311402017762 conjugal transfer protein TrbB; Provisional; Region: PRK13833 311402017763 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 311402017764 ATP binding site [chemical binding]; other site 311402017765 Walker A motif; other site 311402017766 hexamer interface [polypeptide binding]; other site 311402017767 Walker B motif; other site 311402017768 Autoinducer binding domain; Region: Autoind_bind; pfam03472 311402017769 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 311402017770 DNA binding residues [nucleotide binding] 311402017771 dimerization interface [polypeptide binding]; other site 311402017772 Autoinducer synthetase; Region: Autoind_synth; cl17404