-- dump date 20140619_135432 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1366053000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1366053000002 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1366053000003 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1366053000004 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1366053000005 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1366053000006 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 1366053000007 S-adenosylmethionine binding site [chemical binding]; other site 1366053000008 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1366053000009 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1366053000010 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 1366053000011 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1366053000012 active site 1366053000013 catalytic tetrad [active] 1366053000014 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1366053000015 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 1366053000016 putative substrate translocation pore; other site 1366053000017 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1366053000018 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1366053000019 active site 1366053000020 catalytic site [active] 1366053000021 metal binding site [ion binding]; metal-binding site 1366053000022 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1366053000023 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 1366053000024 putative substrate translocation pore; other site 1366053000025 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 1366053000026 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1366053000027 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1366053000028 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1366053000029 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1366053000030 putative N- and C-terminal domain interface [polypeptide binding]; other site 1366053000031 putative active site [active] 1366053000032 MgATP binding site [chemical binding]; other site 1366053000033 catalytic site [active] 1366053000034 metal binding site [ion binding]; metal-binding site 1366053000035 putative xylulose binding site [chemical binding]; other site 1366053000036 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1366053000037 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1366053000038 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1366053000039 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 1366053000040 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053000041 TM-ABC transporter signature motif; other site 1366053000042 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1366053000043 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1366053000044 Walker A/P-loop; other site 1366053000045 ATP binding site [chemical binding]; other site 1366053000046 Q-loop/lid; other site 1366053000047 ABC transporter signature motif; other site 1366053000048 Walker B; other site 1366053000049 D-loop; other site 1366053000050 H-loop/switch region; other site 1366053000051 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1366053000052 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1366053000053 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1366053000054 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1366053000055 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1366053000056 DctM-like transporters; Region: DctM; pfam06808 1366053000057 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1366053000058 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1366053000059 Domain of unknown function (DUF386); Region: DUF386; cl01047 1366053000060 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 1366053000061 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1366053000062 substrate binding site [chemical binding]; other site 1366053000063 Mn binding site [ion binding]; other site 1366053000064 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1366053000065 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1366053000066 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1366053000067 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1366053000068 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1366053000069 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1366053000070 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 1366053000071 IMP binding site; other site 1366053000072 dimer interface [polypeptide binding]; other site 1366053000073 interdomain contacts; other site 1366053000074 partial ornithine binding site; other site 1366053000075 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1366053000076 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1366053000077 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1366053000078 catalytic site [active] 1366053000079 subunit interface [polypeptide binding]; other site 1366053000080 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 1366053000081 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1366053000082 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1366053000083 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1366053000084 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1366053000085 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1366053000086 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1366053000087 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1366053000088 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1366053000089 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1366053000090 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 1366053000091 beta subunit interaction interface [polypeptide binding]; other site 1366053000092 Walker A motif; other site 1366053000093 ATP binding site [chemical binding]; other site 1366053000094 Walker B motif; other site 1366053000095 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1366053000096 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1366053000097 core domain interface [polypeptide binding]; other site 1366053000098 delta subunit interface [polypeptide binding]; other site 1366053000099 epsilon subunit interface [polypeptide binding]; other site 1366053000100 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1366053000101 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1366053000102 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 1366053000103 alpha subunit interaction interface [polypeptide binding]; other site 1366053000104 Walker A motif; other site 1366053000105 ATP binding site [chemical binding]; other site 1366053000106 Walker B motif; other site 1366053000107 inhibitor binding site; inhibition site 1366053000108 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1366053000109 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1366053000110 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1366053000111 gamma subunit interface [polypeptide binding]; other site 1366053000112 epsilon subunit interface [polypeptide binding]; other site 1366053000113 LBP interface [polypeptide binding]; other site 1366053000114 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1366053000115 dimer interface [polypeptide binding]; other site 1366053000116 active site 1366053000117 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1366053000118 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 1366053000119 dimerization interface [polypeptide binding]; other site 1366053000120 putative DNA binding site [nucleotide binding]; other site 1366053000121 putative Zn2+ binding site [ion binding]; other site 1366053000122 AsnC family; Region: AsnC_trans_reg; pfam01037 1366053000123 FMN-binding protein MioC; Provisional; Region: PRK09004 1366053000124 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1366053000125 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1366053000126 peptide binding site [polypeptide binding]; other site 1366053000127 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1366053000128 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1366053000129 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1366053000130 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1366053000131 Phage tail tube protein; Region: Tail_tube; pfam10618 1366053000132 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1366053000133 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1366053000134 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1366053000135 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 1366053000136 sequence-specific DNA binding site [nucleotide binding]; other site 1366053000137 Predicted transcriptional regulator [Transcription]; Region: COG2932 1366053000138 salt bridge; other site 1366053000139 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 1366053000140 Catalytic site [active] 1366053000141 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1366053000142 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1366053000143 inhibitor site; inhibition site 1366053000144 active site 1366053000145 dimer interface [polypeptide binding]; other site 1366053000146 catalytic residue [active] 1366053000147 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1366053000148 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1366053000149 nucleotide binding site [chemical binding]; other site 1366053000150 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1366053000151 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1366053000152 putative active site cavity [active] 1366053000153 selenocysteine synthase; Provisional; Region: PRK04311 1366053000154 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1366053000155 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1366053000156 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1366053000157 catalytic residue [active] 1366053000158 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1366053000159 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1366053000160 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1366053000161 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1366053000162 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1366053000163 G1 box; other site 1366053000164 putative GEF interaction site [polypeptide binding]; other site 1366053000165 GTP/Mg2+ binding site [chemical binding]; other site 1366053000166 Switch I region; other site 1366053000167 G2 box; other site 1366053000168 G3 box; other site 1366053000169 Switch II region; other site 1366053000170 G4 box; other site 1366053000171 G5 box; other site 1366053000172 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1366053000173 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1366053000174 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1366053000175 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1366053000176 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1366053000177 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1366053000178 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1366053000179 DctM-like transporters; Region: DctM; pfam06808 1366053000180 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1366053000181 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1366053000182 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 1366053000183 Ligand Binding Site [chemical binding]; other site 1366053000184 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1366053000185 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1366053000186 putative RNA binding site [nucleotide binding]; other site 1366053000187 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 1366053000188 S-adenosylmethionine binding site [chemical binding]; other site 1366053000189 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1366053000190 TrkA-N domain; Region: TrkA_N; pfam02254 1366053000191 TrkA-C domain; Region: TrkA_C; pfam02080 1366053000192 TrkA-N domain; Region: TrkA_N; pfam02254 1366053000193 TrkA-C domain; Region: TrkA_C; pfam02080 1366053000194 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1366053000195 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1366053000196 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1366053000197 NAD binding site [chemical binding]; other site 1366053000198 catalytic residues [active] 1366053000199 substrate binding site [chemical binding]; other site 1366053000200 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1366053000201 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1366053000202 dimer interface [polypeptide binding]; other site 1366053000203 active site 1366053000204 metal binding site [ion binding]; metal-binding site 1366053000205 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1366053000206 active site turn [active] 1366053000207 phosphorylation site [posttranslational modification] 1366053000208 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1366053000209 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1366053000210 putative ligand binding site [chemical binding]; other site 1366053000211 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053000212 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 1366053000213 TM-ABC transporter signature motif; other site 1366053000214 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1366053000215 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1366053000216 Walker A/P-loop; other site 1366053000217 ATP binding site [chemical binding]; other site 1366053000218 Q-loop/lid; other site 1366053000219 ABC transporter signature motif; other site 1366053000220 Walker B; other site 1366053000221 D-loop; other site 1366053000222 H-loop/switch region; other site 1366053000223 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1366053000224 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; cd00398 1366053000225 intersubunit interface [polypeptide binding]; other site 1366053000226 active site 1366053000227 Zn2+ binding site [ion binding]; other site 1366053000228 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1366053000229 L-fuculokinase; Provisional; Region: PRK10331 1366053000230 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1366053000231 nucleotide binding site [chemical binding]; other site 1366053000232 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1366053000233 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1366053000234 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1366053000235 trimer interface [polypeptide binding]; other site 1366053000236 substrate binding site [chemical binding]; other site 1366053000237 Mn binding site [ion binding]; other site 1366053000238 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1366053000239 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1366053000240 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1366053000241 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 1366053000242 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1366053000243 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1366053000244 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1366053000245 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 1366053000246 dimerization interface [polypeptide binding]; other site 1366053000247 ATP binding site [chemical binding]; other site 1366053000248 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 1366053000249 dimerization interface [polypeptide binding]; other site 1366053000250 ATP binding site [chemical binding]; other site 1366053000251 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1366053000252 putative active site [active] 1366053000253 catalytic triad [active] 1366053000254 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 1366053000255 Transposase IS200 like; Region: Y1_Tnp; cl00848 1366053000256 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1366053000257 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1366053000258 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053000259 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053000260 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1366053000261 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1366053000262 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 1366053000263 Moco binding site; other site 1366053000264 metal coordination site [ion binding]; other site 1366053000265 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 1366053000266 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1366053000267 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 1366053000268 DNA binding residues [nucleotide binding] 1366053000269 putative oxidoreductase; Provisional; Region: PRK11579 1366053000270 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1366053000271 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1366053000272 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1366053000273 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1366053000274 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 1366053000275 metal-binding site [ion binding] 1366053000276 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1366053000277 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1366053000278 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1366053000279 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1366053000280 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1366053000281 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1366053000282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1366053000283 NAD(P) binding site [chemical binding]; other site 1366053000284 active site 1366053000285 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1366053000286 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1366053000287 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 1366053000288 motif II; other site 1366053000289 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1366053000290 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1366053000291 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1366053000292 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1366053000293 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 1366053000294 putative active site [active] 1366053000295 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 1366053000296 Transposase IS200 like; Region: Y1_Tnp; cl00848 1366053000297 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1366053000298 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1366053000299 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1366053000300 active site 1366053000301 P-loop; other site 1366053000302 phosphorylation site [posttranslational modification] 1366053000303 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 1366053000304 active site 1366053000305 phosphorylation site [posttranslational modification] 1366053000306 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1366053000307 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1366053000308 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1366053000309 Mannitol repressor; Region: MtlR; cl11450 1366053000310 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1366053000311 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1366053000312 transmembrane helices; other site 1366053000313 TrkA-C domain; Region: TrkA_C; pfam02080 1366053000314 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1366053000315 TrkA-C domain; Region: TrkA_C; pfam02080 1366053000316 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1366053000317 transcriptional repressor DicA; Reviewed; Region: PRK09706 1366053000318 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 1366053000319 non-specific DNA binding site [nucleotide binding]; other site 1366053000320 salt bridge; other site 1366053000321 sequence-specific DNA binding site [nucleotide binding]; other site 1366053000322 Predicted transcriptional regulator [Transcription]; Region: Nlp; COG3423 1366053000323 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1366053000324 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053000325 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 1366053000326 TM-ABC transporter signature motif; other site 1366053000327 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1366053000328 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1366053000329 Walker A/P-loop; other site 1366053000330 ATP binding site [chemical binding]; other site 1366053000331 Q-loop/lid; other site 1366053000332 ABC transporter signature motif; other site 1366053000333 Walker B; other site 1366053000334 D-loop; other site 1366053000335 H-loop/switch region; other site 1366053000336 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1366053000337 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1366053000338 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 1366053000339 putative ligand binding site [chemical binding]; other site 1366053000340 xylose isomerase; Provisional; Region: PRK05474 1366053000341 xylose isomerase; Region: xylose_isom_A; TIGR02630 1366053000342 xylulokinase; Provisional; Region: PRK15027 1366053000343 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1366053000344 N- and C-terminal domain interface [polypeptide binding]; other site 1366053000345 active site 1366053000346 MgATP binding site [chemical binding]; other site 1366053000347 catalytic site [active] 1366053000348 metal binding site [ion binding]; metal-binding site 1366053000349 xylulose binding site [chemical binding]; other site 1366053000350 homodimer interface [polypeptide binding]; other site 1366053000351 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1366053000352 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1366053000353 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1366053000354 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1366053000355 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1366053000356 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1366053000357 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1366053000358 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1366053000359 CrcB-like protein; Region: CRCB; cl09114 1366053000360 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1366053000361 amphipathic channel; other site 1366053000362 Asn-Pro-Ala signature motifs; other site 1366053000363 glycerol kinase; Provisional; Region: glpK; PRK00047 1366053000364 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1366053000365 N- and C-terminal domain interface [polypeptide binding]; other site 1366053000366 active site 1366053000367 MgATP binding site [chemical binding]; other site 1366053000368 catalytic site [active] 1366053000369 metal binding site [ion binding]; metal-binding site 1366053000370 glycerol binding site [chemical binding]; other site 1366053000371 homotetramer interface [polypeptide binding]; other site 1366053000372 homodimer interface [polypeptide binding]; other site 1366053000373 FBP binding site [chemical binding]; other site 1366053000374 protein IIAGlc interface [polypeptide binding]; other site 1366053000375 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1366053000376 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1366053000377 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1366053000378 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1366053000379 active site 1366053000380 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1366053000381 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 1366053000382 dimer interface [polypeptide binding]; other site 1366053000383 conserved gate region; other site 1366053000384 putative PBP binding loops; other site 1366053000385 ABC-ATPase subunit interface; other site 1366053000386 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1366053000387 NMT1-like family; Region: NMT1_2; pfam13379 1366053000388 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1366053000389 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1366053000390 HlyD family secretion protein; Region: HlyD_3; pfam13437 1366053000391 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1366053000392 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1366053000393 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1366053000394 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 1366053000395 Walker A/P-loop; other site 1366053000396 ATP binding site [chemical binding]; other site 1366053000397 Q-loop/lid; other site 1366053000398 ABC transporter signature motif; other site 1366053000399 Walker B; other site 1366053000400 D-loop; other site 1366053000401 H-loop/switch region; other site 1366053000402 RTX N-terminal domain; Region: RTX; pfam02382 1366053000403 RTX C-terminal domain; Region: RTX_C; pfam08339 1366053000404 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1366053000405 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1366053000406 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 1366053000407 substrate binding pocket [chemical binding]; other site 1366053000408 membrane-bound complex binding site; other site 1366053000409 hinge residues; other site 1366053000410 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1366053000411 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1366053000412 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 1366053000413 Walker A motif; other site 1366053000414 ATP binding site [chemical binding]; other site 1366053000415 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 1366053000416 Walker B motif; other site 1366053000417 arginine finger; other site 1366053000418 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1366053000419 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 1366053000420 active site 1366053000421 HslU subunit interaction site [polypeptide binding]; other site 1366053000422 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1366053000423 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1366053000424 EamA-like transporter family; Region: EamA; pfam00892 1366053000425 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_1; cd08352 1366053000426 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1366053000427 putative metal binding site [ion binding]; other site 1366053000428 adenine DNA glycosylase; Provisional; Region: PRK10880 1366053000429 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1366053000430 minor groove reading motif; other site 1366053000431 helix-hairpin-helix signature motif; other site 1366053000432 substrate binding pocket [chemical binding]; other site 1366053000433 active site 1366053000434 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1366053000435 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 1366053000436 DNA binding and oxoG recognition site [nucleotide binding] 1366053000437 oxidative damage protection protein; Provisional; Region: PRK05408 1366053000438 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1366053000439 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1366053000440 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 1366053000441 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 1366053000442 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1366053000443 catalytic residue [active] 1366053000444 signal recognition particle protein; Provisional; Region: PRK10867 1366053000445 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1366053000446 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 1366053000447 P loop; other site 1366053000448 GTP binding site [chemical binding]; other site 1366053000449 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1366053000450 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1366053000451 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1366053000452 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1366053000453 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1366053000454 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1366053000455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1366053000456 putative aldolase; Validated; Region: PRK08130 1366053000457 intersubunit interface [polypeptide binding]; other site 1366053000458 active site 1366053000459 Zn2+ binding site [ion binding]; other site 1366053000460 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1366053000461 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 1366053000462 Metal-binding active site; metal-binding site 1366053000463 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1366053000464 GntP family permease; Region: GntP_permease; pfam02447 1366053000465 Predicted peptidase [General function prediction only]; Region: COG4099 1366053000466 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1366053000467 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1366053000468 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 1366053000469 FeS/SAM binding site; other site 1366053000470 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 1366053000471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1366053000472 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1366053000473 NAD(P) binding site [chemical binding]; other site 1366053000474 active site 1366053000475 Dihaem cytochrome c; Region: DHC; pfam09626 1366053000476 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 1366053000477 dimer interface [polypeptide binding]; other site 1366053000478 motif 1; other site 1366053000479 active site 1366053000480 motif 2; other site 1366053000481 motif 3; other site 1366053000482 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1366053000483 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1366053000484 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1366053000485 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1366053000486 DALR anticodon binding domain; Region: DALR_1; pfam05746 1366053000487 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1366053000488 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1366053000489 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1366053000490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1366053000491 YheO-like PAS domain; Region: PAS_6; pfam08348 1366053000492 HTH domain; Region: HTH_22; pfam13309 1366053000493 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1366053000494 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1366053000495 active site 1366053000496 Int/Topo IB signature motif; other site 1366053000497 Protein of unknown function (DUF454); Region: DUF454; cl01063 1366053000498 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1366053000499 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 1366053000500 S-adenosylmethionine binding site [chemical binding]; other site 1366053000501 hypothetical protein; Provisional; Region: PRK11027 1366053000502 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1366053000503 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1366053000504 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1366053000505 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1366053000506 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1366053000507 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1366053000508 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1366053000509 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 1366053000510 MPT binding site; other site 1366053000511 trimer interface [polypeptide binding]; other site 1366053000512 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1366053000513 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1366053000514 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 1366053000515 binding surface 1366053000516 TPR motif; other site 1366053000517 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1366053000518 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1366053000519 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 1366053000520 catalytic residues [active] 1366053000521 central insert; other site 1366053000522 pantothenate kinase; Provisional; Region: PRK05439 1366053000523 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 1366053000524 ATP-binding site [chemical binding]; other site 1366053000525 CoA-binding site [chemical binding]; other site 1366053000526 Mg2+-binding site [ion binding]; other site 1366053000527 elongation factor Tu; Reviewed; Region: PRK00049 1366053000528 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1366053000529 G1 box; other site 1366053000530 GEF interaction site [polypeptide binding]; other site 1366053000531 GTP/Mg2+ binding site [chemical binding]; other site 1366053000532 Switch I region; other site 1366053000533 G2 box; other site 1366053000534 G3 box; other site 1366053000535 Switch II region; other site 1366053000536 G4 box; other site 1366053000537 G5 box; other site 1366053000538 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 1366053000539 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 1366053000540 Antibiotic Binding Site [chemical binding]; other site 1366053000541 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1366053000542 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1366053000543 Walker A/P-loop; other site 1366053000544 ATP binding site [chemical binding]; other site 1366053000545 Q-loop/lid; other site 1366053000546 ABC transporter signature motif; other site 1366053000547 Walker B; other site 1366053000548 D-loop; other site 1366053000549 H-loop/switch region; other site 1366053000550 TOBE domain; Region: TOBE_2; pfam08402 1366053000551 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1366053000552 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 1366053000553 dimer interface [polypeptide binding]; other site 1366053000554 conserved gate region; other site 1366053000555 putative PBP binding loops; other site 1366053000556 ABC-ATPase subunit interface; other site 1366053000557 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 1366053000558 dimer interface [polypeptide binding]; other site 1366053000559 conserved gate region; other site 1366053000560 putative PBP binding loops; other site 1366053000561 ABC-ATPase subunit interface; other site 1366053000562 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1366053000563 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1366053000564 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1366053000565 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1366053000566 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1366053000567 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1366053000568 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 1366053000569 glutaminase active site [active] 1366053000570 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 1366053000571 dimer interface [polypeptide binding]; other site 1366053000572 active site 1366053000573 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 1366053000574 dimer interface [polypeptide binding]; other site 1366053000575 active site 1366053000576 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1366053000577 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1366053000578 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1366053000579 RNA binding site [nucleotide binding]; other site 1366053000580 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1366053000581 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1366053000582 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1366053000583 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1366053000584 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1366053000585 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1366053000586 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1366053000587 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1366053000588 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 1366053000589 23S rRNA interface [nucleotide binding]; other site 1366053000590 L21e interface [polypeptide binding]; other site 1366053000591 5S rRNA interface [nucleotide binding]; other site 1366053000592 L27 interface [polypeptide binding]; other site 1366053000593 L5 interface [polypeptide binding]; other site 1366053000594 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1366053000595 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1366053000596 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1366053000597 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 1366053000598 23S rRNA binding site [nucleotide binding]; other site 1366053000599 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1366053000600 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1366053000601 SecY translocase; Region: SecY; pfam00344 1366053000602 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1366053000603 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1366053000604 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1366053000605 30S ribosomal protein S11; Validated; Region: PRK05309 1366053000606 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1366053000607 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1366053000608 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 1366053000609 RNA binding surface [nucleotide binding]; other site 1366053000610 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1366053000611 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1366053000612 alphaNTD homodimer interface [polypeptide binding]; other site 1366053000613 alphaNTD - beta interaction site [polypeptide binding]; other site 1366053000614 alphaNTD - beta' interaction site [polypeptide binding]; other site 1366053000615 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1366053000616 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1366053000617 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1366053000618 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1366053000619 putative dimerization interface [polypeptide binding]; other site 1366053000620 putative ligand binding site [chemical binding]; other site 1366053000621 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053000622 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1366053000623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053000624 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1366053000625 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1366053000626 DNA binding site [nucleotide binding] 1366053000627 domain linker motif; other site 1366053000628 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 1366053000629 putative ligand binding site [chemical binding]; other site 1366053000630 putative dimerization interface [polypeptide binding]; other site 1366053000631 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 1366053000632 Shikimate kinase; Region: SKI; pfam01202 1366053000633 ATP-binding site [chemical binding]; other site 1366053000634 Gluconate-6-phosphate binding site [chemical binding]; other site 1366053000635 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1366053000636 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1366053000637 cell density-dependent motility repressor; Provisional; Region: PRK10082 1366053000638 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053000639 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 1366053000640 dimerization interface [polypeptide binding]; other site 1366053000641 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1366053000642 aspartate racemase; Region: asp_race; TIGR00035 1366053000643 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1366053000644 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1366053000645 succinic semialdehyde dehydrogenase; Region: PLN02278 1366053000646 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1366053000647 tetramerization interface [polypeptide binding]; other site 1366053000648 NAD(P) binding site [chemical binding]; other site 1366053000649 catalytic residues [active] 1366053000650 KduI/IolB family; Region: KduI; cl01508 1366053000651 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1366053000652 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1366053000653 tetrameric interface [polypeptide binding]; other site 1366053000654 NAD binding site [chemical binding]; other site 1366053000655 catalytic residues [active] 1366053000656 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1366053000657 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 1366053000658 ligand binding site [chemical binding]; other site 1366053000659 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1366053000660 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1366053000661 Walker A/P-loop; other site 1366053000662 ATP binding site [chemical binding]; other site 1366053000663 Q-loop/lid; other site 1366053000664 ABC transporter signature motif; other site 1366053000665 Walker B; other site 1366053000666 D-loop; other site 1366053000667 H-loop/switch region; other site 1366053000668 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1366053000669 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053000670 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 1366053000671 TM-ABC transporter signature motif; other site 1366053000672 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1366053000673 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1366053000674 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1366053000675 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1366053000676 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1366053000677 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1366053000678 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1366053000679 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 1366053000680 Metal-binding active site; metal-binding site 1366053000681 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1366053000682 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1366053000683 PYR/PP interface [polypeptide binding]; other site 1366053000684 dimer interface [polypeptide binding]; other site 1366053000685 TPP binding site [chemical binding]; other site 1366053000686 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1366053000687 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 1366053000688 TPP-binding site; other site 1366053000689 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1366053000690 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 1366053000691 substrate binding site [chemical binding]; other site 1366053000692 ATP binding site [chemical binding]; other site 1366053000693 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1366053000694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1366053000695 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1366053000696 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1366053000697 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1366053000698 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1366053000699 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1366053000700 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1366053000701 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 1366053000702 putative active site [active] 1366053000703 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1366053000704 active site turn [active] 1366053000705 phosphorylation site [posttranslational modification] 1366053000706 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1366053000707 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1366053000708 RimM N-terminal domain; Region: RimM; pfam01782 1366053000709 PRC-barrel domain; Region: PRC; pfam05239 1366053000710 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1366053000711 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1366053000712 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 1366053000713 metal binding site [ion binding]; metal-binding site 1366053000714 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1366053000715 Cupin domain; Region: Cupin_2; cl17218 1366053000716 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1366053000717 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1366053000718 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1366053000719 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1366053000720 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1366053000721 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 1366053000722 carboxyltransferase (CT) interaction site; other site 1366053000723 biotinylation site [posttranslational modification]; other site 1366053000724 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 1366053000725 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1366053000726 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1366053000727 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 1366053000728 active site 1366053000729 trimer interface [polypeptide binding]; other site 1366053000730 dimer interface [polypeptide binding]; other site 1366053000731 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1366053000732 Coenzyme A binding pocket [chemical binding]; other site 1366053000733 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1366053000734 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 1366053000735 trimer interface [polypeptide binding]; other site 1366053000736 active site 1366053000737 substrate binding site [chemical binding]; other site 1366053000738 CoA binding site [chemical binding]; other site 1366053000739 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1366053000740 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1366053000741 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1366053000742 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 1366053000743 S-adenosylmethionine binding site [chemical binding]; other site 1366053000744 Sporulation related domain; Region: SPOR; pfam05036 1366053000745 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1366053000746 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1366053000747 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1366053000748 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 1366053000749 Walker A motif; other site 1366053000750 ATP binding site [chemical binding]; other site 1366053000751 Part of AAA domain; Region: AAA_19; pfam13245 1366053000752 Family description; Region: UvrD_C_2; pfam13538 1366053000753 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1366053000754 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1366053000755 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1366053000756 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 1366053000757 S-adenosylmethionine binding site [chemical binding]; other site 1366053000758 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 1366053000759 non-specific DNA binding site [nucleotide binding]; other site 1366053000760 salt bridge; other site 1366053000761 sequence-specific DNA binding site [nucleotide binding]; other site 1366053000762 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1366053000763 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1366053000764 catalytic residues [active] 1366053000765 catalytic nucleophile [active] 1366053000766 Recombinase; Region: Recombinase; pfam07508 1366053000767 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1366053000768 ParB-like nuclease domain; Region: ParB; smart00470 1366053000769 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1366053000770 ParB-like nuclease domain; Region: ParBc; cl02129 1366053000771 RepB plasmid partitioning protein; Region: RepB; pfam07506 1366053000772 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053000773 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053000774 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053000775 Integrase core domain; Region: rve; pfam00665 1366053000776 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053000777 Integrase core domain; Region: rve_3; pfam13683 1366053000778 TniQ; Region: TniQ; pfam06527 1366053000779 Bacterial TniB protein; Region: TniB; pfam05621 1366053000780 AAA domain; Region: AAA_22; pfam13401 1366053000781 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053000782 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053000783 Integrase core domain; Region: rve; pfam00665 1366053000784 Integrase core domain; Region: rve_3; cl15866 1366053000785 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1366053000786 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1366053000787 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1366053000788 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1366053000789 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1366053000790 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1366053000791 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1366053000792 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1366053000793 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1366053000794 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1366053000795 dimer interface [polypeptide binding]; other site 1366053000796 tetramer interface [polypeptide binding]; other site 1366053000797 PYR/PP interface [polypeptide binding]; other site 1366053000798 TPP binding site [chemical binding]; other site 1366053000799 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1366053000800 TPP-binding site; other site 1366053000801 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1366053000802 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1366053000803 Ligand binding site; other site 1366053000804 metal-binding site 1366053000805 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1366053000806 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1366053000807 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1366053000808 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1366053000809 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1366053000810 ligand binding site [chemical binding]; other site 1366053000811 calcium binding site [ion binding]; other site 1366053000812 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1366053000813 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1366053000814 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1366053000815 Probable transposase; Region: OrfB_IS605; pfam01385 1366053000816 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1366053000817 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1366053000818 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1366053000819 ligand binding site [chemical binding]; other site 1366053000820 calcium binding site [ion binding]; other site 1366053000821 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1366053000822 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1366053000823 Walker A/P-loop; other site 1366053000824 ATP binding site [chemical binding]; other site 1366053000825 Q-loop/lid; other site 1366053000826 ABC transporter signature motif; other site 1366053000827 Walker B; other site 1366053000828 D-loop; other site 1366053000829 H-loop/switch region; other site 1366053000830 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1366053000831 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053000832 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 1366053000833 TM-ABC transporter signature motif; other site 1366053000834 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1366053000835 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 1366053000836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053000837 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053000838 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1366053000839 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1366053000840 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1366053000841 Glutamate binding site [chemical binding]; other site 1366053000842 NAD binding site [chemical binding]; other site 1366053000843 catalytic residues [active] 1366053000844 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1366053000845 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 1366053000846 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 1366053000847 inhibitor-cofactor binding pocket; inhibition site 1366053000848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053000849 catalytic residue [active] 1366053000850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053000851 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1366053000852 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 1366053000853 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1366053000854 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1366053000855 hypothetical protein; Provisional; Region: PRK10506 1366053000856 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1366053000857 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1366053000858 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1366053000859 protease3; Provisional; Region: PRK15101 1366053000860 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1366053000861 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1366053000862 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1366053000863 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1366053000864 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1366053000865 peptide binding site [polypeptide binding]; other site 1366053000866 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1366053000867 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 1366053000868 N-terminal plug; other site 1366053000869 ligand-binding site [chemical binding]; other site 1366053000870 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1366053000871 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1366053000872 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1366053000873 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1366053000874 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1366053000875 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1366053000876 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1366053000877 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1366053000878 FAD binding domain; Region: FAD_binding_4; pfam01565 1366053000879 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1366053000880 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1366053000881 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 1366053000882 ligand binding site [chemical binding]; other site 1366053000883 flexible hinge region; other site 1366053000884 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 1366053000885 putative switch regulator; other site 1366053000886 non-specific DNA interactions [nucleotide binding]; other site 1366053000887 DNA binding site [nucleotide binding] 1366053000888 sequence specific DNA binding site [nucleotide binding]; other site 1366053000889 putative cAMP binding site [chemical binding]; other site 1366053000890 hypothetical protein; Provisional; Region: PRK04966 1366053000891 division inhibitor protein; Provisional; Region: slmA; PRK09480 1366053000892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1366053000893 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1366053000894 trimer interface [polypeptide binding]; other site 1366053000895 active site 1366053000896 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1366053000897 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1366053000898 Ligand binding site; other site 1366053000899 metal-binding site 1366053000900 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1366053000901 Src Homology 3 domain superfamily; Region: SH3; cl17036 1366053000902 peptide ligand binding site [polypeptide binding]; other site 1366053000903 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1366053000904 Flavoprotein; Region: Flavoprotein; pfam02441 1366053000905 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1366053000906 hypothetical protein; Reviewed; Region: PRK00024 1366053000907 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1366053000908 MPN+ (JAMM) motif; other site 1366053000909 Zinc-binding site [ion binding]; other site 1366053000910 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1366053000911 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1366053000912 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1366053000913 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1366053000914 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1366053000915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1366053000916 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1366053000917 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1366053000918 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1366053000919 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1366053000920 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 1366053000921 inhibitor-cofactor binding pocket; inhibition site 1366053000922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053000923 catalytic residue [active] 1366053000924 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1366053000925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053000926 catalytic residue [active] 1366053000927 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1366053000928 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1366053000929 ferredoxin-type protein NapF; Region: napF; TIGR00402 1366053000930 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1366053000931 4Fe-4S binding domain; Region: Fer4; cl02805 1366053000932 NapD protein; Region: NapD; pfam03927 1366053000933 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1366053000934 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 1366053000935 [4Fe-4S] binding site [ion binding]; other site 1366053000936 molybdopterin cofactor binding site; other site 1366053000937 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 1366053000938 molybdopterin cofactor binding site; other site 1366053000939 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1366053000940 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1366053000941 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1366053000942 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1366053000943 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1366053000944 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1366053000945 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1366053000946 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1366053000947 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1366053000948 active site 1366053000949 metal binding site [ion binding]; metal-binding site 1366053000950 hexamer interface [polypeptide binding]; other site 1366053000951 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 1366053000952 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1366053000953 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1366053000954 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 1366053000955 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1366053000956 molybdopterin cofactor binding site [chemical binding]; other site 1366053000957 substrate binding site [chemical binding]; other site 1366053000958 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1366053000959 molybdopterin cofactor binding site; other site 1366053000960 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1366053000961 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1366053000962 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1366053000963 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053000964 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053000965 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053000966 Integrase core domain; Region: rve; pfam00665 1366053000967 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053000968 Integrase core domain; Region: rve_3; pfam13683 1366053000969 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1366053000970 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 1366053000971 dimer interface [polypeptide binding]; other site 1366053000972 ADP-ribose binding site [chemical binding]; other site 1366053000973 active site 1366053000974 nudix motif; other site 1366053000975 metal binding site [ion binding]; metal-binding site 1366053000976 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1366053000977 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1366053000978 Predicted membrane protein [Function unknown]; Region: COG2510 1366053000979 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1366053000980 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1366053000981 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1366053000982 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1366053000983 Na binding site [ion binding]; other site 1366053000984 Protein of unknown function (DUF997); Region: DUF997; pfam06196 1366053000985 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 1366053000986 dimerization interface [polypeptide binding]; other site 1366053000987 DNA binding site [nucleotide binding] 1366053000988 corepressor binding sites; other site 1366053000989 VacJ like lipoprotein; Region: VacJ; cl01073 1366053000990 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1366053000991 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1366053000992 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1366053000993 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1366053000994 Virulence protein [General function prediction only]; Region: COG3943 1366053000995 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1366053000996 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1366053000997 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1366053000998 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1366053000999 trimer interface [polypeptide binding]; other site 1366053001000 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1366053001001 trimer interface [polypeptide binding]; other site 1366053001002 Haemagglutinin; Region: HIM; pfam05662 1366053001003 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1366053001004 YadA-like C-terminal region; Region: YadA; pfam03895 1366053001005 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1366053001006 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1366053001007 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1366053001008 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1366053001009 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053001010 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 1366053001011 dimerization interface [polypeptide binding]; other site 1366053001012 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 1366053001013 catalytic triad [active] 1366053001014 dimer interface [polypeptide binding]; other site 1366053001015 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1366053001016 threonine synthase; Validated; Region: PRK09225 1366053001017 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1366053001018 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1366053001019 catalytic residue [active] 1366053001020 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 1366053001021 active site 1366053001022 dimer interfaces [polypeptide binding]; other site 1366053001023 catalytic residues [active] 1366053001024 TIGR01666 family membrane protein; Region: YCCS 1366053001025 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1366053001026 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1366053001027 HEXXH motif domain; Region: mod_HExxH; TIGR04267 1366053001028 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1366053001029 Paraquat-inducible protein A; Region: PqiA; pfam04403 1366053001030 Paraquat-inducible protein A; Region: PqiA; pfam04403 1366053001031 ketol-acid reductoisomerase; Validated; Region: PRK05225 1366053001032 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1366053001033 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1366053001034 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1366053001035 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1366053001036 ATP binding site [chemical binding]; other site 1366053001037 active site 1366053001038 substrate binding site [chemical binding]; other site 1366053001039 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1366053001040 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1366053001041 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1366053001042 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1366053001043 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 1366053001044 NAD binding site [chemical binding]; other site 1366053001045 dimerization interface [polypeptide binding]; other site 1366053001046 product binding site; other site 1366053001047 substrate binding site [chemical binding]; other site 1366053001048 zinc binding site [ion binding]; other site 1366053001049 catalytic residues [active] 1366053001050 putative phosphate acyltransferase; Provisional; Region: PRK05331 1366053001051 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1366053001052 hypothetical protein; Provisional; Region: PRK11193 1366053001053 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1366053001054 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1366053001055 Domain of unknown function DUF21; Region: DUF21; pfam01595 1366053001056 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 1366053001057 Transporter associated domain; Region: CorC_HlyC; smart01091 1366053001058 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1366053001059 Na2 binding site [ion binding]; other site 1366053001060 putative substrate binding site 1 [chemical binding]; other site 1366053001061 Na binding site 1 [ion binding]; other site 1366053001062 putative substrate binding site 2 [chemical binding]; other site 1366053001063 glutaredoxin 1; Provisional; Region: grxA; PRK11200 1366053001064 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1366053001065 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 1366053001066 ATP binding site [chemical binding]; other site 1366053001067 Mg++ binding site [ion binding]; other site 1366053001068 motif III; other site 1366053001069 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 1366053001070 nucleotide binding region [chemical binding]; other site 1366053001071 ATP-binding site [chemical binding]; other site 1366053001072 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1366053001073 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1366053001074 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1366053001075 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1366053001076 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1366053001077 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1366053001078 catalytic residues [active] 1366053001079 hinge region; other site 1366053001080 alpha helical domain; other site 1366053001081 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1366053001082 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1366053001083 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1366053001084 GTP binding site; other site 1366053001085 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 1366053001086 Walker A motif; other site 1366053001087 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1366053001088 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1366053001089 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1366053001090 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1366053001091 AMP binding site [chemical binding]; other site 1366053001092 metal binding site [ion binding]; metal-binding site 1366053001093 active site 1366053001094 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1366053001095 active site 1366053001096 phosphate binding residues; other site 1366053001097 catalytic residues [active] 1366053001098 Pirin-related protein [General function prediction only]; Region: COG1741 1366053001099 Pirin; Region: Pirin; pfam02678 1366053001100 hypothetical protein; Provisional; Region: PRK11212 1366053001101 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 1366053001102 active site 1366053001103 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1366053001104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053001105 Walker A/P-loop; other site 1366053001106 ATP binding site [chemical binding]; other site 1366053001107 Q-loop/lid; other site 1366053001108 ABC transporter signature motif; other site 1366053001109 Walker B; other site 1366053001110 D-loop; other site 1366053001111 H-loop/switch region; other site 1366053001112 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1366053001113 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 1366053001114 dimer interface [polypeptide binding]; other site 1366053001115 conserved gate region; other site 1366053001116 putative PBP binding loops; other site 1366053001117 ABC-ATPase subunit interface; other site 1366053001118 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 1366053001119 dimerization domain swap beta strand [polypeptide binding]; other site 1366053001120 regulatory protein interface [polypeptide binding]; other site 1366053001121 active site 1366053001122 regulatory phosphorylation site [posttranslational modification]; other site 1366053001123 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1366053001124 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1366053001125 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1366053001126 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1366053001127 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1366053001128 HPr interaction site; other site 1366053001129 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1366053001130 active site 1366053001131 phosphorylation site [posttranslational modification] 1366053001132 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1366053001133 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1366053001134 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 1366053001135 FeS/SAM binding site; other site 1366053001136 TRAM domain; Region: TRAM; pfam01938 1366053001137 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1366053001138 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 1366053001139 putative substrate binding site [chemical binding]; other site 1366053001140 putative ATP binding site [chemical binding]; other site 1366053001141 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1366053001142 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1366053001143 substrate binding [chemical binding]; other site 1366053001144 active site 1366053001145 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1366053001146 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1366053001147 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1366053001148 DNA binding site [nucleotide binding] 1366053001149 domain linker motif; other site 1366053001150 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1366053001151 dimerization interface [polypeptide binding]; other site 1366053001152 ligand binding site [chemical binding]; other site 1366053001153 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1366053001154 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1366053001155 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1366053001156 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1366053001157 Zn2+ binding site [ion binding]; other site 1366053001158 Mg2+ binding site [ion binding]; other site 1366053001159 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1366053001160 synthetase active site [active] 1366053001161 NTP binding site [chemical binding]; other site 1366053001162 metal binding site [ion binding]; metal-binding site 1366053001163 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 1366053001164 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1366053001165 Abi-like protein; Region: Abi_2; cl01988 1366053001166 ferrochelatase; Reviewed; Region: hemH; PRK00035 1366053001167 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 1366053001168 C-terminal domain interface [polypeptide binding]; other site 1366053001169 active site 1366053001170 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 1366053001171 active site 1366053001172 N-terminal domain interface [polypeptide binding]; other site 1366053001173 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1366053001174 Haemolytic domain; Region: Haemolytic; pfam01809 1366053001175 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1366053001176 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1366053001177 Chain length determinant protein; Region: Wzz; pfam02706 1366053001178 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1366053001179 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1366053001180 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1366053001181 active site 1366053001182 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 1366053001183 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1366053001184 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 1366053001185 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1366053001186 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1366053001187 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1366053001188 metal binding triad [ion binding]; metal-binding site 1366053001189 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1366053001190 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1366053001191 NAD binding site [chemical binding]; other site 1366053001192 substrate binding site [chemical binding]; other site 1366053001193 homodimer interface [polypeptide binding]; other site 1366053001194 active site 1366053001195 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1366053001196 O-Antigen ligase; Region: Wzy_C; pfam04932 1366053001197 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1366053001198 putative active site [active] 1366053001199 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1366053001200 DNA primase; Validated; Region: dnaG; PRK05667 1366053001201 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1366053001202 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1366053001203 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 1366053001204 active site 1366053001205 metal binding site [ion binding]; metal-binding site 1366053001206 interdomain interaction site; other site 1366053001207 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1366053001208 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1366053001209 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1366053001210 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1366053001211 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1366053001212 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1366053001213 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1366053001214 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1366053001215 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 1366053001216 DNA binding residues [nucleotide binding] 1366053001217 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1366053001218 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1366053001219 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1366053001220 UbiA prenyltransferase family; Region: UbiA; pfam01040 1366053001221 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1366053001222 homodimer interaction site [polypeptide binding]; other site 1366053001223 cofactor binding site; other site 1366053001224 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1366053001225 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1366053001226 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1366053001227 amphipathic channel; other site 1366053001228 Asn-Pro-Ala signature motifs; other site 1366053001229 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1366053001230 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1366053001231 threonine dehydratase; Reviewed; Region: PRK09224 1366053001232 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 1366053001233 tetramer interface [polypeptide binding]; other site 1366053001234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053001235 catalytic residue [active] 1366053001236 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1366053001237 putative Ile/Val binding site [chemical binding]; other site 1366053001238 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1366053001239 putative Ile/Val binding site [chemical binding]; other site 1366053001240 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1366053001241 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 1366053001242 active site 1366053001243 substrate binding site [chemical binding]; other site 1366053001244 metal binding site [ion binding]; metal-binding site 1366053001245 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 1366053001246 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1366053001247 active site 1366053001248 dimer interface [polypeptide binding]; other site 1366053001249 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1366053001250 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1366053001251 ligand binding site [chemical binding]; other site 1366053001252 NAD binding site [chemical binding]; other site 1366053001253 tetramer interface [polypeptide binding]; other site 1366053001254 catalytic site [active] 1366053001255 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1366053001256 L-serine binding site [chemical binding]; other site 1366053001257 ACT domain interface; other site 1366053001258 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1366053001259 two-component response regulator; Provisional; Region: PRK11173 1366053001260 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 1366053001261 active site 1366053001262 phosphorylation site [posttranslational modification] 1366053001263 intermolecular recognition site; other site 1366053001264 dimerization interface [polypeptide binding]; other site 1366053001265 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 1366053001266 DNA binding site [nucleotide binding] 1366053001267 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1366053001268 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1366053001269 active site 1366053001270 metal binding site [ion binding]; metal-binding site 1366053001271 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1366053001272 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1366053001273 active site 1366053001274 nucleotide binding site [chemical binding]; other site 1366053001275 HIGH motif; other site 1366053001276 KMSKS motif; other site 1366053001277 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1366053001278 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1366053001279 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1366053001280 active site 1366053001281 Riboflavin kinase; Region: Flavokinase; smart00904 1366053001282 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1366053001283 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1366053001284 active site 1366053001285 HIGH motif; other site 1366053001286 nucleotide binding site [chemical binding]; other site 1366053001287 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1366053001288 active site 1366053001289 KMSKS motif; other site 1366053001290 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1366053001291 tRNA binding surface [nucleotide binding]; other site 1366053001292 anticodon binding site; other site 1366053001293 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1366053001294 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1366053001295 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1366053001296 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1366053001297 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1366053001298 domain interface [polypeptide binding]; other site 1366053001299 putative active site [active] 1366053001300 catalytic site [active] 1366053001301 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1366053001302 domain interface [polypeptide binding]; other site 1366053001303 putative active site [active] 1366053001304 catalytic site [active] 1366053001305 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1366053001306 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1366053001307 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1366053001308 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1366053001309 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053001310 Walker A/P-loop; other site 1366053001311 ATP binding site [chemical binding]; other site 1366053001312 Q-loop/lid; other site 1366053001313 ABC transporter signature motif; other site 1366053001314 Walker B; other site 1366053001315 D-loop; other site 1366053001316 H-loop/switch region; other site 1366053001317 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1366053001318 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053001319 Walker A/P-loop; other site 1366053001320 ATP binding site [chemical binding]; other site 1366053001321 Q-loop/lid; other site 1366053001322 ABC transporter signature motif; other site 1366053001323 Walker B; other site 1366053001324 D-loop; other site 1366053001325 H-loop/switch region; other site 1366053001326 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1366053001327 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 1366053001328 dimer interface [polypeptide binding]; other site 1366053001329 conserved gate region; other site 1366053001330 putative PBP binding loops; other site 1366053001331 ABC-ATPase subunit interface; other site 1366053001332 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1366053001333 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 1366053001334 dimer interface [polypeptide binding]; other site 1366053001335 conserved gate region; other site 1366053001336 putative PBP binding loops; other site 1366053001337 ABC-ATPase subunit interface; other site 1366053001338 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1366053001339 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_3; cd08490 1366053001340 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1366053001341 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1366053001342 G1 box; other site 1366053001343 putative GEF interaction site [polypeptide binding]; other site 1366053001344 GTP/Mg2+ binding site [chemical binding]; other site 1366053001345 Switch I region; other site 1366053001346 G2 box; other site 1366053001347 G3 box; other site 1366053001348 Switch II region; other site 1366053001349 G4 box; other site 1366053001350 G5 box; other site 1366053001351 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 1366053001352 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1366053001353 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1366053001354 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 1366053001355 putative active site [active] 1366053001356 catalytic residue [active] 1366053001357 GTP-binding protein YchF; Reviewed; Region: PRK09601 1366053001358 YchF GTPase; Region: YchF; cd01900 1366053001359 G1 box; other site 1366053001360 GTP/Mg2+ binding site [chemical binding]; other site 1366053001361 Switch I region; other site 1366053001362 G2 box; other site 1366053001363 Switch II region; other site 1366053001364 G3 box; other site 1366053001365 G4 box; other site 1366053001366 G5 box; other site 1366053001367 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 1366053001368 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1366053001369 L-lactate permease; Region: Lactate_perm; cl00701 1366053001370 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1366053001371 Cysteine-rich domain; Region: CCG; pfam02754 1366053001372 Cysteine-rich domain; Region: CCG; pfam02754 1366053001373 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1366053001374 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1366053001375 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 1366053001376 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1366053001377 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1366053001378 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1366053001379 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 1366053001380 ribonuclease PH; Reviewed; Region: rph; PRK00173 1366053001381 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1366053001382 hexamer interface [polypeptide binding]; other site 1366053001383 active site 1366053001384 hypothetical protein; Provisional; Region: PRK11820 1366053001385 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1366053001386 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1366053001387 putative global regulator; Reviewed; Region: PRK09559 1366053001388 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1366053001389 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1366053001390 D-ribose pyranase; Provisional; Region: PRK11797 1366053001391 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1366053001392 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1366053001393 Walker A/P-loop; other site 1366053001394 ATP binding site [chemical binding]; other site 1366053001395 Q-loop/lid; other site 1366053001396 ABC transporter signature motif; other site 1366053001397 Walker B; other site 1366053001398 D-loop; other site 1366053001399 H-loop/switch region; other site 1366053001400 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1366053001401 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053001402 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 1366053001403 TM-ABC transporter signature motif; other site 1366053001404 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1366053001405 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1366053001406 ligand binding site [chemical binding]; other site 1366053001407 dimerization interface [polypeptide binding]; other site 1366053001408 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1366053001409 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 1366053001410 substrate binding site [chemical binding]; other site 1366053001411 dimer interface [polypeptide binding]; other site 1366053001412 ATP binding site [chemical binding]; other site 1366053001413 transcriptional repressor RbsR; Provisional; Region: PRK10423 1366053001414 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1366053001415 DNA binding site [nucleotide binding] 1366053001416 domain linker motif; other site 1366053001417 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1366053001418 dimerization interface [polypeptide binding]; other site 1366053001419 ligand binding site [chemical binding]; other site 1366053001420 transcriptional regulator NarP; Provisional; Region: PRK10403 1366053001421 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 1366053001422 active site 1366053001423 phosphorylation site [posttranslational modification] 1366053001424 intermolecular recognition site; other site 1366053001425 dimerization interface [polypeptide binding]; other site 1366053001426 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 1366053001427 DNA binding residues [nucleotide binding] 1366053001428 dimerization interface [polypeptide binding]; other site 1366053001429 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1366053001430 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1366053001431 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1366053001432 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1366053001433 putative RNA binding site [nucleotide binding]; other site 1366053001434 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 1366053001435 S-adenosylmethionine binding site [chemical binding]; other site 1366053001436 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1366053001437 BRO family, N-terminal domain; Region: Bro-N; smart01040 1366053001438 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1366053001439 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1366053001440 active site 1366053001441 trimer interface [polypeptide binding]; other site 1366053001442 allosteric site; other site 1366053001443 active site lid [active] 1366053001444 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1366053001445 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1366053001446 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 1366053001447 active site 1366053001448 dimer interface [polypeptide binding]; other site 1366053001449 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1366053001450 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1366053001451 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1366053001452 active site 1366053001453 HIGH motif; other site 1366053001454 dimer interface [polypeptide binding]; other site 1366053001455 KMSKS motif; other site 1366053001456 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 1366053001457 RNA binding surface [nucleotide binding]; other site 1366053001458 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1366053001459 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1366053001460 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1366053001461 active site 1366053001462 catalytic residues [active] 1366053001463 metal binding site [ion binding]; metal-binding site 1366053001464 homodimer binding site [polypeptide binding]; other site 1366053001465 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 1366053001466 carboxyltransferase (CT) interaction site; other site 1366053001467 biotinylation site [posttranslational modification]; other site 1366053001468 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1366053001469 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1366053001470 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1366053001471 putative active site [active] 1366053001472 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1366053001473 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1366053001474 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1366053001475 DNA ligase; Provisional; Region: PRK09125 1366053001476 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1366053001477 DNA binding site [nucleotide binding] 1366053001478 active site 1366053001479 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 1366053001480 DNA binding site [nucleotide binding] 1366053001481 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1366053001482 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1366053001483 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1366053001484 G1 box; other site 1366053001485 GTP/Mg2+ binding site [chemical binding]; other site 1366053001486 Switch I region; other site 1366053001487 G2 box; other site 1366053001488 G3 box; other site 1366053001489 Switch II region; other site 1366053001490 G4 box; other site 1366053001491 G5 box; other site 1366053001492 RNase E inhibitor protein; Provisional; Region: PRK11191 1366053001493 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1366053001494 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1366053001495 CPxP motif; other site 1366053001496 proline dipeptidase; Provisional; Region: PRK13607 1366053001497 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 1366053001498 active site 1366053001499 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1366053001500 EamA-like transporter family; Region: EamA; pfam00892 1366053001501 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1366053001502 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1366053001503 active site 1366053001504 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1366053001505 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1366053001506 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1366053001507 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 1366053001508 putative NADH binding site [chemical binding]; other site 1366053001509 putative active site [active] 1366053001510 nudix motif; other site 1366053001511 putative metal binding site [ion binding]; other site 1366053001512 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1366053001513 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1366053001514 active site 1366053001515 dimer interface [polypeptide binding]; other site 1366053001516 catalytic residues [active] 1366053001517 effector binding site; other site 1366053001518 R2 peptide binding site; other site 1366053001519 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1366053001520 dimer interface [polypeptide binding]; other site 1366053001521 putative radical transfer pathway; other site 1366053001522 diiron center [ion binding]; other site 1366053001523 tyrosyl radical; other site 1366053001524 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1366053001525 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 1366053001526 FMN binding site [chemical binding]; other site 1366053001527 active site 1366053001528 catalytic residues [active] 1366053001529 substrate binding site [chemical binding]; other site 1366053001530 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 1366053001531 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1366053001532 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 1366053001533 substrate binding site [chemical binding]; other site 1366053001534 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1366053001535 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1366053001536 substrate binding site [chemical binding]; other site 1366053001537 ligand binding site [chemical binding]; other site 1366053001538 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1366053001539 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1366053001540 peptide binding site [polypeptide binding]; other site 1366053001541 Acylphosphatase; Region: Acylphosphatase; cl00551 1366053001542 aminopeptidase N; Provisional; Region: pepN; PRK14015 1366053001543 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1366053001544 active site 1366053001545 Zn binding site [ion binding]; other site 1366053001546 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1366053001547 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1366053001548 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1366053001549 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 1366053001550 ligand-binding site [chemical binding]; other site 1366053001551 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1366053001552 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1366053001553 aromatic amino acid transport protein; Region: araaP; TIGR00837 1366053001554 transcription-repair coupling factor; Provisional; Region: PRK10689 1366053001555 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1366053001556 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 1366053001557 ATP binding site [chemical binding]; other site 1366053001558 putative Mg++ binding site [ion binding]; other site 1366053001559 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 1366053001560 nucleotide binding region [chemical binding]; other site 1366053001561 ATP-binding site [chemical binding]; other site 1366053001562 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1366053001563 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1366053001564 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1366053001565 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1366053001566 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 1366053001567 oligomeric interface; other site 1366053001568 putative active site [active] 1366053001569 homodimer interface [polypeptide binding]; other site 1366053001570 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1366053001571 peptidase T-like protein; Region: PepT-like; TIGR01883 1366053001572 metal binding site [ion binding]; metal-binding site 1366053001573 dimer interface [polypeptide binding]; other site 1366053001574 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1366053001575 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1366053001576 putative NAD(P) binding site [chemical binding]; other site 1366053001577 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1366053001578 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 1366053001579 ABC-ATPase subunit interface; other site 1366053001580 dimer interface [polypeptide binding]; other site 1366053001581 putative PBP binding regions; other site 1366053001582 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1366053001583 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 1366053001584 ABC-ATPase subunit interface; other site 1366053001585 dimer interface [polypeptide binding]; other site 1366053001586 putative PBP binding regions; other site 1366053001587 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1366053001588 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1366053001589 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1366053001590 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 1366053001591 metal binding site [ion binding]; metal-binding site 1366053001592 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1366053001593 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 1366053001594 FeS/SAM binding site; other site 1366053001595 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 1366053001596 non-specific DNA binding site [nucleotide binding]; other site 1366053001597 salt bridge; other site 1366053001598 sequence-specific DNA binding site [nucleotide binding]; other site 1366053001599 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1366053001600 TPR repeat; Region: TPR_11; pfam13414 1366053001601 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 1366053001602 binding surface 1366053001603 TPR motif; other site 1366053001604 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1366053001605 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1366053001606 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1366053001607 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 1366053001608 RNA binding site [nucleotide binding]; other site 1366053001609 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 1366053001610 putative FMN binding site [chemical binding]; other site 1366053001611 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 1366053001612 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1366053001613 tandem repeat interface [polypeptide binding]; other site 1366053001614 oligomer interface [polypeptide binding]; other site 1366053001615 active site residues [active] 1366053001616 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1366053001617 tandem repeat interface [polypeptide binding]; other site 1366053001618 oligomer interface [polypeptide binding]; other site 1366053001619 active site residues [active] 1366053001620 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1366053001621 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1366053001622 Na binding site [ion binding]; other site 1366053001623 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1366053001624 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 1366053001625 dimer interface [polypeptide binding]; other site 1366053001626 substrate binding site [chemical binding]; other site 1366053001627 ATP binding site [chemical binding]; other site 1366053001628 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 1366053001629 thiamine phosphate binding site [chemical binding]; other site 1366053001630 active site 1366053001631 pyrophosphate binding site [ion binding]; other site 1366053001632 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 1366053001633 metabolite-proton symporter; Region: 2A0106; TIGR00883 1366053001634 putative substrate translocation pore; other site 1366053001635 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1366053001636 substrate binding site [chemical binding]; other site 1366053001637 multimerization interface [polypeptide binding]; other site 1366053001638 ATP binding site [chemical binding]; other site 1366053001639 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 1366053001640 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1366053001641 effector binding site; other site 1366053001642 active site 1366053001643 Zn binding site [ion binding]; other site 1366053001644 glycine loop; other site 1366053001645 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1366053001646 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1366053001647 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1366053001648 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1366053001649 PYR/PP interface [polypeptide binding]; other site 1366053001650 dimer interface [polypeptide binding]; other site 1366053001651 TPP binding site [chemical binding]; other site 1366053001652 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1366053001653 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 1366053001654 TPP-binding site [chemical binding]; other site 1366053001655 dimer interface [polypeptide binding]; other site 1366053001656 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1366053001657 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1366053001658 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1366053001659 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 1366053001660 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1366053001661 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 1366053001662 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1366053001663 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1366053001664 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 1366053001665 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1366053001666 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 1366053001667 binding surface 1366053001668 TPR motif; other site 1366053001669 serine endoprotease; Provisional; Region: PRK10942 1366053001670 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1366053001671 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 1366053001672 protein binding site [polypeptide binding]; other site 1366053001673 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 1366053001674 protein binding site [polypeptide binding]; other site 1366053001675 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1366053001676 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1366053001677 Walker A/P-loop; other site 1366053001678 ATP binding site [chemical binding]; other site 1366053001679 Q-loop/lid; other site 1366053001680 ABC transporter signature motif; other site 1366053001681 Walker B; other site 1366053001682 D-loop; other site 1366053001683 H-loop/switch region; other site 1366053001684 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1366053001685 conserved hypothetical integral membrane protein; Region: TIGR00056 1366053001686 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1366053001687 mce related protein; Region: MCE; pfam02470 1366053001688 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1366053001689 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 1366053001690 anti sigma factor interaction site; other site 1366053001691 regulatory phosphorylation site [posttranslational modification]; other site 1366053001692 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1366053001693 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1366053001694 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 1366053001695 hinge; other site 1366053001696 active site 1366053001697 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 1366053001698 active site 1366053001699 putative DNA-binding cleft [nucleotide binding]; other site 1366053001700 dimer interface [polypeptide binding]; other site 1366053001701 hypothetical protein; Validated; Region: PRK00110 1366053001702 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_7; cd04664 1366053001703 nudix motif; other site 1366053001704 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1366053001705 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1366053001706 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1366053001707 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1366053001708 Predicted transcriptional regulator [Transcription]; Region: COG2932 1366053001709 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1366053001710 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 1366053001711 Catalytic site [active] 1366053001712 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1366053001713 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1366053001714 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 1366053001715 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 1366053001716 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1366053001717 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1366053001718 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 1366053001719 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 1366053001720 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1366053001721 Mor transcription activator family; Region: Mor; pfam08765 1366053001722 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1366053001723 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1366053001724 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1366053001725 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1366053001726 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1366053001727 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1366053001728 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1366053001729 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1366053001730 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1366053001731 Terminase-like family; Region: Terminase_6; pfam03237 1366053001732 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1366053001733 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1366053001734 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1366053001735 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1366053001736 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1366053001737 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1366053001738 Gp37 protein; Region: Gp37; pfam09646 1366053001739 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1366053001740 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1366053001741 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1366053001742 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1366053001743 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1366053001744 membrane protein P6; Region: PHA01399 1366053001745 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1366053001746 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1366053001747 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1366053001748 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1366053001749 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1366053001750 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1366053001751 Baseplate J-like protein; Region: Baseplate_J; cl01294 1366053001752 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1366053001753 N-terminal domain of PARMER_03128; Region: PARMER_03128_N; cd12106 1366053001754 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1366053001755 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1366053001756 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 1366053001757 dimer interface [polypeptide binding]; other site 1366053001758 anticodon binding site; other site 1366053001759 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 1366053001760 homodimer interface [polypeptide binding]; other site 1366053001761 motif 1; other site 1366053001762 active site 1366053001763 motif 2; other site 1366053001764 GAD domain; Region: GAD; pfam02938 1366053001765 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 1366053001766 active site 1366053001767 motif 3; other site 1366053001768 Predicted membrane protein [Function unknown]; Region: COG2431 1366053001769 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1366053001770 active site 1366053001771 DNA polymerase IV; Validated; Region: PRK02406 1366053001772 DNA binding site [nucleotide binding] 1366053001773 heat shock protein HtpX; Provisional; Region: PRK05457 1366053001774 Predicted membrane protein [Function unknown]; Region: COG1238 1366053001775 formate transporter FocA; Region: formate_focA; TIGR04060 1366053001776 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1366053001777 Pyruvate formate lyase 1; Region: PFL1; cd01678 1366053001778 coenzyme A binding site [chemical binding]; other site 1366053001779 active site 1366053001780 catalytic residues [active] 1366053001781 glycine loop; other site 1366053001782 Virulence protein [General function prediction only]; Region: COG3943 1366053001783 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1366053001784 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1366053001785 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 1366053001786 FeS/SAM binding site; other site 1366053001787 oligopeptidase A; Provisional; Region: PRK10911 1366053001788 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1366053001789 active site 1366053001790 Zn binding site [ion binding]; other site 1366053001791 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1366053001792 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1366053001793 Prephenate dehydratase; Region: PDT; pfam00800 1366053001794 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 1366053001795 putative L-Phe binding site [chemical binding]; other site 1366053001796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1366053001797 adenylate kinase; Reviewed; Region: adk; PRK00279 1366053001798 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 1366053001799 AMP-binding site [chemical binding]; other site 1366053001800 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1366053001801 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1366053001802 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 1366053001803 ligand-binding site [chemical binding]; other site 1366053001804 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1366053001805 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1366053001806 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 1366053001807 ABC-ATPase subunit interface; other site 1366053001808 dimer interface [polypeptide binding]; other site 1366053001809 putative PBP binding regions; other site 1366053001810 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1366053001811 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 1366053001812 ABC-ATPase subunit interface; other site 1366053001813 dimer interface [polypeptide binding]; other site 1366053001814 putative PBP binding regions; other site 1366053001815 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 1366053001816 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1366053001817 intersubunit interface [polypeptide binding]; other site 1366053001818 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1366053001819 Walker A/P-loop; other site 1366053001820 ATP binding site [chemical binding]; other site 1366053001821 ABC transporter; Region: ABC_tran; pfam00005 1366053001822 Q-loop/lid; other site 1366053001823 ABC transporter signature motif; other site 1366053001824 Walker B; other site 1366053001825 D-loop; other site 1366053001826 H-loop/switch region; other site 1366053001827 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1366053001828 AmpG-like permease; Region: 2A0125; TIGR00901 1366053001829 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1366053001830 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1366053001831 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 1366053001832 substrate binding pocket [chemical binding]; other site 1366053001833 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 1366053001834 B12 binding site [chemical binding]; other site 1366053001835 cobalt ligand [ion binding]; other site 1366053001836 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1366053001837 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1366053001838 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1366053001839 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1366053001840 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053001841 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1366053001842 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053001843 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1366053001844 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053001845 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1366053001846 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1366053001847 Walker A/P-loop; other site 1366053001848 ATP binding site [chemical binding]; other site 1366053001849 Q-loop/lid; other site 1366053001850 ABC transporter signature motif; other site 1366053001851 Walker B; other site 1366053001852 D-loop; other site 1366053001853 H-loop/switch region; other site 1366053001854 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1366053001855 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 1366053001856 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 1366053001857 putative PBP binding regions; other site 1366053001858 ABC-ATPase subunit interface; other site 1366053001859 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1366053001860 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1366053001861 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1366053001862 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1366053001863 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 1366053001864 intersubunit interface [polypeptide binding]; other site 1366053001865 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 1366053001866 FAD binding site [chemical binding]; other site 1366053001867 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1366053001868 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1366053001869 NAD binding site [chemical binding]; other site 1366053001870 homodimer interface [polypeptide binding]; other site 1366053001871 active site 1366053001872 substrate binding site [chemical binding]; other site 1366053001873 Trm112p-like protein; Region: Trm112p; cl01066 1366053001874 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1366053001875 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1366053001876 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1366053001877 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 1366053001878 non-specific DNA binding site [nucleotide binding]; other site 1366053001879 salt bridge; other site 1366053001880 sequence-specific DNA binding site [nucleotide binding]; other site 1366053001881 Fic family protein [Function unknown]; Region: COG3177 1366053001882 Fic/DOC family; Region: Fic; pfam02661 1366053001883 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1366053001884 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1366053001885 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 1366053001886 Walker A motif; other site 1366053001887 ATP binding site [chemical binding]; other site 1366053001888 Walker B motif; other site 1366053001889 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1366053001890 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1366053001891 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1366053001892 oligomer interface [polypeptide binding]; other site 1366053001893 active site residues [active] 1366053001894 Fe-S metabolism associated domain; Region: SufE; cl00951 1366053001895 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1366053001896 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 1366053001897 S-adenosylmethionine binding site [chemical binding]; other site 1366053001898 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1366053001899 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1366053001900 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1366053001901 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 1366053001902 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1366053001903 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1366053001904 glutamine binding [chemical binding]; other site 1366053001905 catalytic triad [active] 1366053001906 anthranilate synthase component I; Provisional; Region: PRK13564 1366053001907 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1366053001908 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1366053001909 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1366053001910 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1366053001911 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 1366053001912 RNA binding surface [nucleotide binding]; other site 1366053001913 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1366053001914 probable active site [active] 1366053001915 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 1366053001916 transmembrane helices; other site 1366053001917 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1366053001918 TrkA-C domain; Region: TrkA_C; pfam02080 1366053001919 TrkA-C domain; Region: TrkA_C; pfam02080 1366053001920 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1366053001921 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1366053001922 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1366053001923 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1366053001924 trimer interface [polypeptide binding]; other site 1366053001925 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1366053001926 trimer interface [polypeptide binding]; other site 1366053001927 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1366053001928 trimer interface [polypeptide binding]; other site 1366053001929 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1366053001930 trimer interface [polypeptide binding]; other site 1366053001931 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1366053001932 YadA-like C-terminal region; Region: YadA; pfam03895 1366053001933 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1366053001934 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1366053001935 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1366053001936 Colicin pore forming domain; Region: Colicin; pfam01024 1366053001937 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1366053001938 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1366053001939 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1366053001940 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1366053001941 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1366053001942 primosomal replication protein N; Provisional; Region: PRK02801 1366053001943 generic binding surface II; other site 1366053001944 generic binding surface I; other site 1366053001945 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1366053001946 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1366053001947 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1366053001948 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1366053001949 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1366053001950 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 1366053001951 active site 1366053001952 catalytic site [active] 1366053001953 substrate binding site [chemical binding]; other site 1366053001954 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1366053001955 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1366053001956 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1366053001957 ABC transporter; Region: ABC_tran_2; pfam12848 1366053001958 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1366053001959 electron transport complex protein RsxA; Provisional; Region: PRK05151 1366053001960 ferredoxin; Provisional; Region: PRK08764 1366053001961 Putative Fe-S cluster; Region: FeS; pfam04060 1366053001962 4Fe-4S binding domain; Region: Fer4; pfam00037 1366053001963 4Fe-4S binding domain; Region: Fer4; cl02805 1366053001964 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1366053001965 SLBB domain; Region: SLBB; pfam10531 1366053001966 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 1366053001967 Predicted membrane protein [Function unknown]; Region: COG2860 1366053001968 UPF0126 domain; Region: UPF0126; pfam03458 1366053001969 UPF0126 domain; Region: UPF0126; pfam03458 1366053001970 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1366053001971 electron transport complex protein RnfG; Validated; Region: PRK01908 1366053001972 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1366053001973 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1366053001974 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1366053001975 putative acyl-acceptor binding pocket; other site 1366053001976 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053001977 active site 1366053001978 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1366053001979 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 1366053001980 Walker A motif; other site 1366053001981 ATP binding site [chemical binding]; other site 1366053001982 Walker B motif; other site 1366053001983 arginine finger; other site 1366053001984 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1366053001985 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1366053001986 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1366053001987 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1366053001988 Walker A/P-loop; other site 1366053001989 ATP binding site [chemical binding]; other site 1366053001990 Q-loop/lid; other site 1366053001991 ABC transporter signature motif; other site 1366053001992 Walker B; other site 1366053001993 D-loop; other site 1366053001994 H-loop/switch region; other site 1366053001995 inner membrane transport permease; Provisional; Region: PRK15066 1366053001996 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1366053001997 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1366053001998 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1366053001999 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1366053002000 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 1366053002001 dimer interface [polypeptide binding]; other site 1366053002002 conserved gate region; other site 1366053002003 putative PBP binding loops; other site 1366053002004 ABC-ATPase subunit interface; other site 1366053002005 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1366053002006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053002007 Walker A/P-loop; other site 1366053002008 ATP binding site [chemical binding]; other site 1366053002009 Q-loop/lid; other site 1366053002010 ABC transporter signature motif; other site 1366053002011 Walker B; other site 1366053002012 D-loop; other site 1366053002013 H-loop/switch region; other site 1366053002014 TOBE domain; Region: TOBE; cl01440 1366053002015 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1366053002016 putative coenzyme Q binding site [chemical binding]; other site 1366053002017 hypothetical protein; Validated; Region: PRK01777 1366053002018 benzoate transport; Region: 2A0115; TIGR00895 1366053002019 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 1366053002020 putative substrate translocation pore; other site 1366053002021 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 1366053002022 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1366053002023 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1366053002024 metal binding site [ion binding]; metal-binding site 1366053002025 dimer interface [polypeptide binding]; other site 1366053002026 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1366053002027 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1366053002028 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1366053002029 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053002030 active site 1366053002031 Guanylate kinase; Region: Guanylate_kin; pfam00625 1366053002032 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 1366053002033 catalytic site [active] 1366053002034 G-X2-G-X-G-K; other site 1366053002035 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1366053002036 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1366053002037 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1366053002038 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1366053002039 Molybdopterin-Binding (MopB) 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- and...; Region: Molybdopterin-Binding; cl09928 1366053002040 molybdopterin cofactor binding site; other site 1366053002041 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 1366053002042 putative molybdopterin cofactor binding site [chemical binding]; other site 1366053002043 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 1366053002044 putative molybdopterin cofactor binding site; other site 1366053002045 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1366053002046 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1366053002047 4Fe-4S binding domain; Region: Fer4; pfam00037 1366053002048 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1366053002049 PIN domain; Region: PIN_3; cl17397 1366053002050 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1366053002051 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 1366053002052 dimer interface [polypeptide binding]; other site 1366053002053 phosphorylation site [posttranslational modification] 1366053002054 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 1366053002055 ATP binding site [chemical binding]; other site 1366053002056 Mg2+ binding site [ion binding]; other site 1366053002057 G-X-G motif; other site 1366053002058 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1366053002059 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 1366053002060 active site 1366053002061 phosphorylation site [posttranslational modification] 1366053002062 intermolecular recognition site; other site 1366053002063 dimerization interface [polypeptide binding]; other site 1366053002064 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 1366053002065 DNA binding residues [nucleotide binding] 1366053002066 dimerization interface [polypeptide binding]; other site 1366053002067 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1366053002068 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 1366053002069 Ligand Binding Site [chemical binding]; other site 1366053002070 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1366053002071 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 1366053002072 S-adenosylmethionine binding site [chemical binding]; other site 1366053002073 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1366053002074 DNA gyrase subunit A; Validated; Region: PRK05560 1366053002075 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 1366053002076 CAP-like domain; other site 1366053002077 active site 1366053002078 primary dimer interface [polypeptide binding]; other site 1366053002079 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1366053002080 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1366053002081 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1366053002082 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1366053002083 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1366053002084 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1366053002085 ABC transporter ATPase component; Reviewed; Region: PRK11147 1366053002086 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053002087 Walker A/P-loop; other site 1366053002088 ATP binding site [chemical binding]; other site 1366053002089 ABC transporter signature motif; other site 1366053002090 Walker B; other site 1366053002091 D-loop; other site 1366053002092 H-loop/switch region; other site 1366053002093 ABC transporter; Region: ABC_tran_2; pfam12848 1366053002094 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1366053002095 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1366053002096 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1366053002097 putative ATP binding site [chemical binding]; other site 1366053002098 putative substrate interface [chemical binding]; other site 1366053002099 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1366053002100 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1366053002101 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1366053002102 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1366053002103 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1366053002104 putative active site [active] 1366053002105 putative metal-binding site [ion binding]; other site 1366053002106 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1366053002107 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1366053002108 Walker A/P-loop; other site 1366053002109 ATP binding site [chemical binding]; other site 1366053002110 Q-loop/lid; other site 1366053002111 ABC transporter signature motif; other site 1366053002112 Walker B; other site 1366053002113 D-loop; other site 1366053002114 H-loop/switch region; other site 1366053002115 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1366053002116 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 1366053002117 dimer interface [polypeptide binding]; other site 1366053002118 conserved gate region; other site 1366053002119 ABC-ATPase subunit interface; other site 1366053002120 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1366053002121 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1366053002122 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1366053002123 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1366053002124 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1366053002125 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1366053002126 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1366053002127 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1366053002128 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1366053002129 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1366053002130 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1366053002131 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1366053002132 nucleophile elbow; other site 1366053002133 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1366053002134 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; cl00208 1366053002135 CAS motifs; other site 1366053002136 active site 1366053002137 hypothetical protein; Provisional; Region: PRK04860 1366053002138 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1366053002139 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1366053002140 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1366053002141 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1366053002142 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1366053002143 AzlC protein; Region: AzlC; pfam03591 1366053002144 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1366053002145 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1366053002146 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1366053002147 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1366053002148 Protein export membrane protein; Region: SecD_SecF; pfam02355 1366053002149 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1366053002150 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1366053002151 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1366053002152 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1366053002153 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1366053002154 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1366053002155 active site 1366053002156 catalytic residues [active] 1366053002157 galactokinase; Provisional; Region: PRK05101 1366053002158 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1366053002159 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1366053002160 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1366053002161 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1366053002162 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1366053002163 dimer interface [polypeptide binding]; other site 1366053002164 active site 1366053002165 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 1366053002166 phosphodiesterase YaeI; Provisional; Region: PRK11340 1366053002167 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1366053002168 putative active site [active] 1366053002169 putative metal binding site [ion binding]; other site 1366053002170 Predicted permeases [General function prediction only]; Region: COG0679 1366053002171 peptide chain release factor 2; Provisional; Region: PRK08787 1366053002172 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1366053002173 RF-1 domain; Region: RF-1; pfam00472 1366053002174 WYL domain; Region: WYL; pfam13280 1366053002175 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1366053002176 active site 1366053002177 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 1366053002178 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053002179 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053002180 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053002181 Integrase core domain; Region: rve; pfam00665 1366053002182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053002183 Integrase core domain; Region: rve_3; pfam13683 1366053002184 selenophosphate synthetase; Provisional; Region: PRK00943 1366053002185 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1366053002186 dimerization interface [polypeptide binding]; other site 1366053002187 putative ATP binding site [chemical binding]; other site 1366053002188 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1366053002189 nudix motif; other site 1366053002190 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1366053002191 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1366053002192 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1366053002193 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. 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...; Region: DHOD_1A_like; cd04741 1366053002194 active site 1366053002195 FMN binding site [chemical binding]; other site 1366053002196 substrate binding site [chemical binding]; other site 1366053002197 catalytic residues [active] 1366053002198 homodimer interface [polypeptide binding]; other site 1366053002199 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1366053002200 enolase; Provisional; Region: eno; PRK00077 1366053002201 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 1366053002202 dimer interface [polypeptide binding]; other site 1366053002203 metal binding site [ion binding]; metal-binding site 1366053002204 substrate binding pocket [chemical binding]; other site 1366053002205 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 1366053002206 beta-hexosaminidase; Provisional; Region: PRK05337 1366053002207 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1366053002208 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1366053002209 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1366053002210 putative DNA-binding cleft [nucleotide binding]; other site 1366053002211 putative DNA clevage site; other site 1366053002212 molecular lever; other site 1366053002213 LexA repressor; Validated; Region: PRK00215 1366053002214 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1366053002215 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 1366053002216 Catalytic site [active] 1366053002217 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1366053002218 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1366053002219 putative acyl-acceptor binding pocket; other site 1366053002220 Predicted membrane protein [Function unknown]; Region: COG1584 1366053002221 Cupin; Region: Cupin_6; pfam12852 1366053002222 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053002223 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1366053002224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053002225 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1366053002226 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1366053002227 active site residue [active] 1366053002228 Predicted membrane protein [Function unknown]; Region: COG3059 1366053002229 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1366053002230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1366053002231 ATP-grasp domain; Region: ATP-grasp; pfam02222 1366053002232 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1366053002233 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1366053002234 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1366053002235 active site turn [active] 1366053002236 phosphorylation site [posttranslational modification] 1366053002237 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1366053002238 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1366053002239 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1366053002240 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1366053002241 YccA-like proteins; Region: YccA_like; cd10433 1366053002242 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1366053002243 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1366053002244 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1366053002245 GIY-YIG motif/motif A; other site 1366053002246 active site 1366053002247 catalytic site [active] 1366053002248 putative DNA binding site [nucleotide binding]; other site 1366053002249 metal binding site [ion binding]; metal-binding site 1366053002250 UvrB/uvrC motif; Region: UVR; pfam02151 1366053002251 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1366053002252 Helix-hairpin-helix motif; Region: HHH; pfam00633 1366053002253 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1366053002254 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1366053002255 23S rRNA binding site [nucleotide binding]; other site 1366053002256 L21 binding site [polypeptide binding]; other site 1366053002257 L13 binding site [polypeptide binding]; other site 1366053002258 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1366053002259 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1366053002260 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1366053002261 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1366053002262 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1366053002263 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 1366053002264 ATP binding site [chemical binding]; other site 1366053002265 putative Mg++ binding site [ion binding]; other site 1366053002266 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 1366053002267 nucleotide binding region [chemical binding]; other site 1366053002268 ATP-binding site [chemical binding]; other site 1366053002269 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1366053002270 HRDC domain; Region: HRDC; pfam00570 1366053002271 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1366053002272 putative iron binding site [ion binding]; other site 1366053002273 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 1366053002274 UGMP family protein; Validated; Region: PRK09604 1366053002275 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1366053002276 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1366053002277 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1366053002278 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 1366053002279 RNA binding surface [nucleotide binding]; other site 1366053002280 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1366053002281 active site 1366053002282 Entericidin EcnA/B family; Region: Entericidin; cl02322 1366053002283 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 1366053002284 30S subunit binding site; other site 1366053002285 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1366053002286 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1366053002287 putative acyl-acceptor binding pocket; other site 1366053002288 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1366053002289 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1366053002290 dimer interface [polypeptide binding]; other site 1366053002291 active site 1366053002292 catalytic residue [active] 1366053002293 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1366053002294 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1366053002295 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1366053002296 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1366053002297 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1366053002298 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1366053002299 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 1366053002300 purine monophosphate binding site [chemical binding]; other site 1366053002301 dimer interface [polypeptide binding]; other site 1366053002302 putative catalytic residues [active] 1366053002303 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1366053002304 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1366053002305 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1366053002306 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1366053002307 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1366053002308 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1366053002309 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1366053002310 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1366053002311 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 1366053002312 active site 1366053002313 multimer interface [polypeptide binding]; other site 1366053002314 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1366053002315 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1366053002316 active site 1366053002317 HIGH motif; other site 1366053002318 KMSKS motif; other site 1366053002319 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1366053002320 tRNA binding surface [nucleotide binding]; other site 1366053002321 anticodon binding site; other site 1366053002322 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1366053002323 dimer interface [polypeptide binding]; other site 1366053002324 putative tRNA-binding site [nucleotide binding]; other site 1366053002325 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1366053002326 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1366053002327 active site 1366053002328 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1366053002329 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 1366053002330 RNA binding surface [nucleotide binding]; other site 1366053002331 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1366053002332 active site 1366053002333 uracil binding [chemical binding]; other site 1366053002334 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 1366053002335 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1366053002336 putative substrate translocation pore; other site 1366053002337 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1366053002338 TRAM domain; Region: TRAM; pfam01938 1366053002339 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 1366053002340 S-adenosylmethionine binding site [chemical binding]; other site 1366053002341 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1366053002342 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1366053002343 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1366053002344 ATP-dependent helicase HepA; Validated; Region: PRK04914 1366053002345 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 1366053002346 ATP binding site [chemical binding]; other site 1366053002347 putative Mg++ binding site [ion binding]; other site 1366053002348 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 1366053002349 nucleotide binding region [chemical binding]; other site 1366053002350 ATP-binding site [chemical binding]; other site 1366053002351 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1366053002352 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1366053002353 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1366053002354 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1366053002355 active site 1366053002356 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1366053002357 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 1366053002358 amidase catalytic site [active] 1366053002359 Zn binding residues [ion binding]; other site 1366053002360 substrate binding site [chemical binding]; other site 1366053002361 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1366053002362 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053002363 active site 1366053002364 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1366053002365 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1366053002366 THF binding site; other site 1366053002367 substrate binding site [chemical binding]; other site 1366053002368 zinc-binding site [ion binding]; other site 1366053002369 cystathionine beta-lyase; Provisional; Region: PRK08114 1366053002370 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 1366053002371 homodimer interface [polypeptide binding]; other site 1366053002372 substrate-cofactor binding pocket; other site 1366053002373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053002374 catalytic residue [active] 1366053002375 disulfide bond formation protein B; Provisional; Region: PRK01749 1366053002376 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1366053002377 fatty acid metabolism regulator; Provisional; Region: PRK04984 1366053002378 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1366053002379 DNA-binding site [nucleotide binding]; DNA binding site 1366053002380 FadR C-terminal domain; Region: FadR_C; pfam07840 1366053002381 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1366053002382 PhoH-like protein; Region: PhoH; pfam02562 1366053002383 transketolase; Reviewed; Region: PRK12753 1366053002384 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 1366053002385 TPP-binding site [chemical binding]; other site 1366053002386 dimer interface [polypeptide binding]; other site 1366053002387 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 1366053002388 PYR/PP interface [polypeptide binding]; other site 1366053002389 dimer interface [polypeptide binding]; other site 1366053002390 TPP binding site [chemical binding]; other site 1366053002391 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1366053002392 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1366053002393 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1366053002394 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 1366053002395 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1366053002396 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1366053002397 putative active site [active] 1366053002398 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1366053002399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053002400 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1366053002401 putative dimerization interface [polypeptide binding]; other site 1366053002402 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1366053002403 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1366053002404 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 1366053002405 Walker A motif; other site 1366053002406 ATP binding site [chemical binding]; other site 1366053002407 Walker B motif; other site 1366053002408 arginine finger; other site 1366053002409 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1366053002410 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1366053002411 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 1366053002412 catalytic motif [active] 1366053002413 Zn binding site [ion binding]; other site 1366053002414 RibD C-terminal domain; Region: RibD_C; cl17279 1366053002415 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1366053002416 Lumazine binding domain; Region: Lum_binding; pfam00677 1366053002417 Lumazine binding domain; Region: Lum_binding; pfam00677 1366053002418 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1366053002419 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1366053002420 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1366053002421 dimerization interface [polypeptide binding]; other site 1366053002422 active site 1366053002423 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 1366053002424 homopentamer interface [polypeptide binding]; other site 1366053002425 active site 1366053002426 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1366053002427 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1366053002428 putative active site [active] 1366053002429 catalytic triad [active] 1366053002430 putative dimer interface [polypeptide binding]; other site 1366053002431 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1366053002432 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 1366053002433 Transporter associated domain; Region: CorC_HlyC; smart01091 1366053002434 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1366053002435 hypothetical protein; Provisional; Region: PRK03641 1366053002436 polysaccharide export protein Wza; Provisional; Region: PRK15078 1366053002437 methionine aminopeptidase; Provisional; Region: PLN03158 1366053002438 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1366053002439 endonuclease IV; Provisional; Region: PRK01060 1366053002440 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; cd00019 1366053002441 AP (apurinic/apyrimidinic) site pocket; other site 1366053002442 DNA interaction; other site 1366053002443 Metal-binding active site; metal-binding site 1366053002444 NlpC/P60 family; Region: NLPC_P60; pfam00877 1366053002445 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1366053002446 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1366053002447 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1366053002448 ligand binding site [chemical binding]; other site 1366053002449 active site 1366053002450 UGI interface [polypeptide binding]; other site 1366053002451 catalytic site [active] 1366053002452 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1366053002453 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 1366053002454 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1366053002455 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1366053002456 catalytic triad [active] 1366053002457 putative active site [active] 1366053002458 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1366053002459 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1366053002460 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 1366053002461 ATP binding site [chemical binding]; other site 1366053002462 putative Mg++ binding site [ion binding]; other site 1366053002463 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 1366053002464 nucleotide binding region [chemical binding]; other site 1366053002465 ATP-binding site [chemical binding]; other site 1366053002466 Helicase associated domain (HA2); Region: HA2; pfam04408 1366053002467 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1366053002468 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1366053002469 Predicted membrane protein [Function unknown]; Region: COG2707 1366053002470 GrpE; Region: GrpE; pfam01025 1366053002471 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 1366053002472 dimer interface [polypeptide binding]; other site 1366053002473 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1366053002474 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1366053002475 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1366053002476 multidrug efflux protein; Reviewed; Region: PRK01766 1366053002477 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1366053002478 cation binding site [ion binding]; other site 1366053002479 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1366053002480 Part of AAA domain; Region: AAA_19; pfam13245 1366053002481 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1366053002482 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1366053002483 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1366053002484 aminopeptidase B; Provisional; Region: PRK05015 1366053002485 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 1366053002486 interface (dimer of trimers) [polypeptide binding]; other site 1366053002487 Substrate-binding/catalytic site; other site 1366053002488 Zn-binding sites [ion binding]; other site 1366053002489 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 1366053002490 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1366053002491 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1366053002492 HlyD family secretion protein; Region: HlyD_3; pfam13437 1366053002493 putative hydrolase; Provisional; Region: PRK10976 1366053002494 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 1366053002495 active site 1366053002496 motif I; other site 1366053002497 motif II; other site 1366053002498 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1366053002499 2-isopropylmalate synthase; Validated; Region: PRK00915 1366053002500 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1366053002501 active site 1366053002502 catalytic residues [active] 1366053002503 metal binding site [ion binding]; metal-binding site 1366053002504 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1366053002505 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1366053002506 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1366053002507 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 1366053002508 DNA binding residues [nucleotide binding] 1366053002509 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1366053002510 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1366053002511 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1366053002512 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1366053002513 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1366053002514 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1366053002515 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1366053002516 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1366053002517 acyl-activating enzyme (AAE) consensus motif; other site 1366053002518 putative AMP binding site [chemical binding]; other site 1366053002519 putative active site [active] 1366053002520 putative CoA binding site [chemical binding]; other site 1366053002521 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053002522 active site 1366053002523 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1366053002524 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 1366053002525 S-adenosylmethionine binding site [chemical binding]; other site 1366053002526 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1366053002527 SurA N-terminal domain; Region: SurA_N; pfam09312 1366053002528 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1366053002529 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1366053002530 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053002531 active site 1366053002532 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1366053002533 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1366053002534 putative ribose interaction site [chemical binding]; other site 1366053002535 putative ADP binding site [chemical binding]; other site 1366053002536 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1366053002537 active site 1366053002538 nucleotide binding site [chemical binding]; other site 1366053002539 HIGH motif; other site 1366053002540 KMSKS motif; other site 1366053002541 GTP-binding protein Der; Reviewed; Region: PRK00093 1366053002542 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1366053002543 G1 box; other site 1366053002544 GTP/Mg2+ binding site [chemical binding]; other site 1366053002545 Switch I region; other site 1366053002546 G2 box; other site 1366053002547 Switch II region; other site 1366053002548 G3 box; other site 1366053002549 G4 box; other site 1366053002550 G5 box; other site 1366053002551 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1366053002552 G1 box; other site 1366053002553 GTP/Mg2+ binding site [chemical binding]; other site 1366053002554 Switch I region; other site 1366053002555 G2 box; other site 1366053002556 G3 box; other site 1366053002557 Switch II region; other site 1366053002558 G4 box; other site 1366053002559 G5 box; other site 1366053002560 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1366053002561 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1366053002562 tRNA; other site 1366053002563 putative tRNA binding site [nucleotide binding]; other site 1366053002564 putative NADP binding site [chemical binding]; other site 1366053002565 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1366053002566 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1366053002567 HD domain; Region: HD_4; pfam13328 1366053002568 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1366053002569 synthetase active site [active] 1366053002570 NTP binding site [chemical binding]; other site 1366053002571 metal binding site [ion binding]; metal-binding site 1366053002572 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 1366053002573 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1366053002574 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1366053002575 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1366053002576 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1366053002577 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1366053002578 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1366053002579 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1366053002580 L-aspartate oxidase; Provisional; Region: PRK06175 1366053002581 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1366053002582 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053002583 Walker A/P-loop; other site 1366053002584 ATP binding site [chemical binding]; other site 1366053002585 Q-loop/lid; other site 1366053002586 ABC transporter signature motif; other site 1366053002587 Walker B; other site 1366053002588 D-loop; other site 1366053002589 H-loop/switch region; other site 1366053002590 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1366053002591 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1366053002592 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1366053002593 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 1366053002594 dimer interface [polypeptide binding]; other site 1366053002595 conserved gate region; other site 1366053002596 putative PBP binding loops; other site 1366053002597 ABC-ATPase subunit interface; other site 1366053002598 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1366053002599 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053002600 Walker A/P-loop; other site 1366053002601 ATP binding site [chemical binding]; other site 1366053002602 Q-loop/lid; other site 1366053002603 ABC transporter signature motif; other site 1366053002604 Walker B; other site 1366053002605 D-loop; other site 1366053002606 H-loop/switch region; other site 1366053002607 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1366053002608 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1366053002609 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 1366053002610 dimer interface [polypeptide binding]; other site 1366053002611 conserved gate region; other site 1366053002612 putative PBP binding loops; other site 1366053002613 ABC-ATPase subunit interface; other site 1366053002614 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1366053002615 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 1366053002616 HemN family oxidoreductase; Provisional; Region: PRK05660 1366053002617 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 1366053002618 FeS/SAM binding site; other site 1366053002619 HemN C-terminal domain; Region: HemN_C; pfam06969 1366053002620 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1366053002621 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1366053002622 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1366053002623 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 1366053002624 catalytic triad [active] 1366053002625 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1366053002626 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 1366053002627 active site 1366053002628 motif I; other site 1366053002629 motif II; other site 1366053002630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1366053002631 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1366053002632 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1366053002633 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1366053002634 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1366053002635 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1366053002636 putative active site [active] 1366053002637 HemK family putative methylases; Region: hemK_fam; TIGR00536 1366053002638 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 1366053002639 S-adenosylmethionine binding site [chemical binding]; other site 1366053002640 hypothetical protein; Provisional; Region: PRK04946 1366053002641 Smr domain; Region: Smr; pfam01713 1366053002642 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1366053002643 putative deacylase active site [active] 1366053002644 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1366053002645 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1366053002646 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 1366053002647 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1366053002648 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1366053002649 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053002650 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053002651 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053002652 Integrase core domain; Region: rve; pfam00665 1366053002653 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053002654 Integrase core domain; Region: rve_3; pfam13683 1366053002655 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1366053002656 active site 1366053002657 phosphate binding residues; other site 1366053002658 catalytic residues [active] 1366053002659 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1366053002660 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1366053002661 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1366053002662 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1366053002663 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1366053002664 GTP binding site; other site 1366053002665 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 1366053002666 Walker A motif; other site 1366053002667 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1366053002668 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1366053002669 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1366053002670 catalytic residues [active] 1366053002671 hinge region; other site 1366053002672 alpha helical domain; other site 1366053002673 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1366053002674 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1366053002675 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1366053002676 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1366053002677 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053002678 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053002679 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053002680 Integrase core domain; Region: rve; pfam00665 1366053002681 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053002682 Integrase core domain; Region: rve_3; pfam13683 1366053002683 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 1366053002684 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1366053002685 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053002686 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053002687 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053002688 Integrase core domain; Region: rve; pfam00665 1366053002689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053002690 Integrase core domain; Region: rve_3; pfam13683 1366053002691 AAA domain; Region: AAA_31; pfam13614 1366053002692 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 1366053002693 P-loop; other site 1366053002694 Magnesium ion binding site [ion binding]; other site 1366053002695 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 1366053002696 Magnesium ion binding site [ion binding]; other site 1366053002697 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1366053002698 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 1366053002699 catalytic residue [active] 1366053002700 TraU protein; Region: TraU; cl06067 1366053002701 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1366053002702 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1366053002703 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053002704 Walker A/P-loop; other site 1366053002705 ATP binding site [chemical binding]; other site 1366053002706 Q-loop/lid; other site 1366053002707 ABC transporter signature motif; other site 1366053002708 Walker B; other site 1366053002709 D-loop; other site 1366053002710 H-loop/switch region; other site 1366053002711 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1366053002712 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1366053002713 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053002714 Walker A/P-loop; other site 1366053002715 ATP binding site [chemical binding]; other site 1366053002716 Q-loop/lid; other site 1366053002717 ABC transporter signature motif; other site 1366053002718 Walker B; other site 1366053002719 D-loop; other site 1366053002720 H-loop/switch region; other site 1366053002721 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1366053002722 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1366053002723 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1366053002724 active site 1366053002725 zinc binding site [ion binding]; other site 1366053002726 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1366053002727 AAA domain; Region: AAA_26; pfam13500 1366053002728 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1366053002729 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 1366053002730 S-adenosylmethionine binding site [chemical binding]; other site 1366053002731 Protein of unknown function (DUF452); Region: DUF452; pfam04301 1366053002732 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1366053002733 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 1366053002734 substrate-cofactor binding pocket; other site 1366053002735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053002736 catalytic residue [active] 1366053002737 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 1366053002738 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 1366053002739 inhibitor-cofactor binding pocket; inhibition site 1366053002740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053002741 catalytic residue [active] 1366053002742 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1366053002743 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1366053002744 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1366053002745 gamma-glutamyl kinase; Provisional; Region: PRK05429 1366053002746 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 1366053002747 nucleotide binding site [chemical binding]; other site 1366053002748 homotetrameric interface [polypeptide binding]; other site 1366053002749 putative phosphate binding site [ion binding]; other site 1366053002750 putative allosteric binding site; other site 1366053002751 PUA domain; Region: PUA; pfam01472 1366053002752 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1366053002753 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1366053002754 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1366053002755 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1366053002756 Putative helicase; Region: TraI_2; pfam07514 1366053002757 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1366053002758 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1366053002759 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053002760 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1366053002761 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 1366053002762 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1366053002763 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1366053002764 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1366053002765 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1366053002766 SEFIR domain; Region: SEFIR; pfam08357 1366053002767 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053002768 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053002769 Integrase core domain; Region: rve; pfam00665 1366053002770 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053002771 Integrase core domain; Region: rve_3; pfam13683 1366053002772 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1366053002773 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1366053002774 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1366053002775 Putative helicase; Region: TraI_2; pfam07514 1366053002776 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1366053002777 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 1366053002778 active site 1366053002779 catalytic residues [active] 1366053002780 DNA binding site [nucleotide binding] 1366053002781 Int/Topo IB signature motif; other site 1366053002782 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1366053002783 ATP binding site [chemical binding]; other site 1366053002784 substrate interface [chemical binding]; other site 1366053002785 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 1366053002786 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1366053002787 Walker A/P-loop; other site 1366053002788 ATP binding site [chemical binding]; other site 1366053002789 Q-loop/lid; other site 1366053002790 ABC transporter signature motif; other site 1366053002791 Walker B; other site 1366053002792 D-loop; other site 1366053002793 H-loop/switch region; other site 1366053002794 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 1366053002795 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1366053002796 putative substrate translocation pore; other site 1366053002797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1366053002798 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 1366053002799 dimer interface [polypeptide binding]; other site 1366053002800 phosphorylation site [posttranslational modification] 1366053002801 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 1366053002802 ATP binding site [chemical binding]; other site 1366053002803 Mg2+ binding site [ion binding]; other site 1366053002804 G-X-G motif; other site 1366053002805 Response regulator receiver domain; Region: Response_reg; pfam00072 1366053002806 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 1366053002807 active site 1366053002808 phosphorylation site [posttranslational modification] 1366053002809 intermolecular recognition site; other site 1366053002810 dimerization interface [polypeptide binding]; other site 1366053002811 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; cl00086 1366053002812 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1366053002813 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1366053002814 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 1366053002815 DNA binding site [nucleotide binding] 1366053002816 active site 1366053002817 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1366053002818 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1366053002819 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1366053002820 Rrf2 family protein; Region: rrf2_super; TIGR00738 1366053002821 cysteine desulfurase; Provisional; Region: PRK14012 1366053002822 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1366053002823 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1366053002824 catalytic residue [active] 1366053002825 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1366053002826 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1366053002827 trimerization site [polypeptide binding]; other site 1366053002828 active site 1366053002829 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1366053002830 co-chaperone HscB; Provisional; Region: hscB; PRK01773 1366053002831 DnaJ domain; Region: DnaJ; pfam00226 1366053002832 HSP70 interaction site [polypeptide binding]; other site 1366053002833 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1366053002834 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 1366053002835 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1366053002836 putative active site [active] 1366053002837 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1366053002838 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1366053002839 nucleotide binding site [chemical binding]; other site 1366053002840 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1366053002841 SBD interface [polypeptide binding]; other site 1366053002842 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1366053002843 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 1366053002844 catalytic loop [active] 1366053002845 iron binding site [ion binding]; other site 1366053002846 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1366053002847 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1366053002848 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1366053002849 gating phenylalanine in ion channel; other site 1366053002850 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1366053002851 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1366053002852 active site 1366053002853 NTP binding site [chemical binding]; other site 1366053002854 metal binding triad [ion binding]; metal-binding site 1366053002855 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1366053002856 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1366053002857 Zn2+ binding site [ion binding]; other site 1366053002858 Mg2+ binding site [ion binding]; other site 1366053002859 endonuclease III; Provisional; Region: PRK10702 1366053002860 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1366053002861 minor groove reading motif; other site 1366053002862 helix-hairpin-helix signature motif; other site 1366053002863 substrate binding pocket [chemical binding]; other site 1366053002864 active site 1366053002865 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1366053002866 hypothetical protein; Provisional; Region: PRK10621 1366053002867 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1366053002868 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1366053002869 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 1366053002870 folate binding site [chemical binding]; other site 1366053002871 NADP+ binding site [chemical binding]; other site 1366053002872 DNA repair protein RadA; Provisional; Region: PRK11823 1366053002873 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 1366053002874 Walker A motif/ATP binding site; other site 1366053002875 ATP binding site [chemical binding]; other site 1366053002876 Walker B motif; other site 1366053002877 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1366053002878 putative major pilin subunit; Provisional; Region: PRK10574 1366053002879 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1366053002880 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1366053002881 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1366053002882 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1366053002883 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1366053002884 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 1366053002885 CoA-binding site [chemical binding]; other site 1366053002886 ATP-binding [chemical binding]; other site 1366053002887 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1366053002888 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1366053002889 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1366053002890 Lipopolysaccharide-assembly; Region: LptE; cl01125 1366053002891 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1366053002892 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1366053002893 HIGH motif; other site 1366053002894 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1366053002895 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1366053002896 active site 1366053002897 KMSKS motif; other site 1366053002898 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1366053002899 tRNA binding surface [nucleotide binding]; other site 1366053002900 seryl-tRNA synthetase; Provisional; Region: PRK05431 1366053002901 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1366053002902 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 1366053002903 dimer interface [polypeptide binding]; other site 1366053002904 active site 1366053002905 motif 1; other site 1366053002906 motif 2; other site 1366053002907 motif 3; other site 1366053002908 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 1366053002909 SmpB-tmRNA interface; other site 1366053002910 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 1366053002911 salt bridge; other site 1366053002912 non-specific DNA binding site [nucleotide binding]; other site 1366053002913 sequence-specific DNA binding site [nucleotide binding]; other site 1366053002914 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1366053002915 YcjX-like family, DUF463; Region: DUF463; pfam04317 1366053002916 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1366053002917 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1366053002918 putative active site [active] 1366053002919 putative metal binding residues [ion binding]; other site 1366053002920 signature motif; other site 1366053002921 putative triphosphate binding site [ion binding]; other site 1366053002922 hypothetical protein; Provisional; Region: PRK05114 1366053002923 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1366053002924 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1366053002925 probable active site [active] 1366053002926 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1366053002927 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1366053002928 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 1366053002929 active site 1366053002930 ribulose/triose binding site [chemical binding]; other site 1366053002931 phosphate binding site [ion binding]; other site 1366053002932 substrate (anthranilate) binding pocket [chemical binding]; other site 1366053002933 product (indole) binding pocket [chemical binding]; other site 1366053002934 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 1366053002935 active site 1366053002936 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1366053002937 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1366053002938 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1366053002939 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 1366053002940 active site 1366053002941 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 1366053002942 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1366053002943 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1366053002944 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 1366053002945 trimer interface [polypeptide binding]; other site 1366053002946 active site 1366053002947 UDP-GlcNAc binding site [chemical binding]; other site 1366053002948 lipid binding site [chemical binding]; lipid-binding site 1366053002949 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1366053002950 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1366053002951 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1366053002952 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1366053002953 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1366053002954 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1366053002955 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1366053002956 Surface antigen; Region: Bac_surface_Ag; pfam01103 1366053002957 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1366053002958 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 1366053002959 active site 1366053002960 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 1366053002961 protein binding site [polypeptide binding]; other site 1366053002962 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 1366053002963 protein binding site [polypeptide binding]; other site 1366053002964 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1366053002965 putative substrate binding region [chemical binding]; other site 1366053002966 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1366053002967 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1366053002968 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1366053002969 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; cd00475 1366053002970 catalytic residue [active] 1366053002971 putative FPP diphosphate binding site; other site 1366053002972 putative FPP binding hydrophobic cleft; other site 1366053002973 dimer interface [polypeptide binding]; other site 1366053002974 putative IPP diphosphate binding site; other site 1366053002975 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1366053002976 biotin synthase; Region: bioB; TIGR00433 1366053002977 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 1366053002978 FeS/SAM binding site; other site 1366053002979 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1366053002980 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1366053002981 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 1366053002982 active site 1366053002983 substrate-binding site [chemical binding]; other site 1366053002984 metal-binding site [ion binding] 1366053002985 ATP binding site [chemical binding]; other site 1366053002986 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1366053002987 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1366053002988 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1366053002989 substrate binding site; other site 1366053002990 dimer interface; other site 1366053002991 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 1366053002992 homotrimer interaction site [polypeptide binding]; other site 1366053002993 zinc binding site [ion binding]; other site 1366053002994 CDP-binding sites; other site 1366053002995 Repair protein; Region: Repair_PSII; pfam04536 1366053002996 Repair protein; Region: Repair_PSII; cl01535 1366053002997 LemA family; Region: LemA; pfam04011 1366053002998 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1366053002999 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1366053003000 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1366053003001 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1366053003002 active site 1366053003003 P-loop; other site 1366053003004 phosphorylation site [posttranslational modification] 1366053003005 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1366053003006 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1366053003007 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1366053003008 putative substrate binding site [chemical binding]; other site 1366053003009 putative ATP binding site [chemical binding]; other site 1366053003010 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 1366053003011 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 1366053003012 active site 1366053003013 phosphorylation site [posttranslational modification] 1366053003014 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 1366053003015 dimerization domain swap beta strand [polypeptide binding]; other site 1366053003016 regulatory protein interface [polypeptide binding]; other site 1366053003017 active site 1366053003018 regulatory phosphorylation site [posttranslational modification]; other site 1366053003019 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 1366053003020 dimerization domain swap beta strand [polypeptide binding]; other site 1366053003021 regulatory protein interface [polypeptide binding]; other site 1366053003022 active site 1366053003023 regulatory phosphorylation site [posttranslational modification]; other site 1366053003024 glycogen branching enzyme; Provisional; Region: PRK05402 1366053003025 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1366053003026 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1366053003027 active site 1366053003028 catalytic site [active] 1366053003029 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1366053003030 glycogen debranching enzyme; Provisional; Region: PRK03705 1366053003031 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 1366053003032 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1366053003033 active site 1366053003034 catalytic site [active] 1366053003035 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1366053003036 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1366053003037 ligand binding site; other site 1366053003038 oligomer interface; other site 1366053003039 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 1366053003040 dimer interface [polypeptide binding]; other site 1366053003041 N-terminal domain interface [polypeptide binding]; other site 1366053003042 sulfate 1 binding site; other site 1366053003043 glycogen synthase; Provisional; Region: glgA; PRK00654 1366053003044 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 1366053003045 ADP-binding pocket [chemical binding]; other site 1366053003046 homodimer interface [polypeptide binding]; other site 1366053003047 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1366053003048 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1366053003049 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1366053003050 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1366053003051 ligand binding site [chemical binding]; other site 1366053003052 homodimer interface [polypeptide binding]; other site 1366053003053 NAD(P) binding site [chemical binding]; other site 1366053003054 trimer interface B [polypeptide binding]; other site 1366053003055 trimer interface A [polypeptide binding]; other site 1366053003056 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1366053003057 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1366053003058 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1366053003059 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1366053003060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053003061 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1366053003062 putative dimerization interface [polypeptide binding]; other site 1366053003063 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1366053003064 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1366053003065 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1366053003066 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1366053003067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1366053003068 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1366053003069 Probable transposase; Region: OrfB_IS605; pfam01385 1366053003070 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1366053003071 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 1366053003072 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1366053003073 Domain of unknown function DUF87; Region: DUF87; pfam01935 1366053003074 Domain of unknown function DUF87; Region: DUF87; pfam01935 1366053003075 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1366053003076 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 1366053003077 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1366053003078 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1366053003079 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1366053003080 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1366053003081 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1366053003082 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1366053003083 ribonuclease G; Provisional; Region: PRK11712 1366053003084 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 1366053003085 homodimer interface [polypeptide binding]; other site 1366053003086 oligonucleotide binding site [chemical binding]; other site 1366053003087 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1366053003088 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 1366053003089 dimer interface [polypeptide binding]; other site 1366053003090 putative anticodon binding site; other site 1366053003091 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 1366053003092 motif 1; other site 1366053003093 active site 1366053003094 motif 2; other site 1366053003095 motif 3; other site 1366053003096 MT-A70; Region: MT-A70; cl01947 1366053003097 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 1366053003098 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1366053003099 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1366053003100 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1366053003101 catalytic residues [active] 1366053003102 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1366053003103 Terminase small subunit; Region: Terminase_2; pfam03592 1366053003104 Phage terminase large subunit; Region: Terminase_3; cl12054 1366053003105 Terminase-like family; Region: Terminase_6; pfam03237 1366053003106 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1366053003107 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1366053003108 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1366053003109 metal binding triad [ion binding]; metal-binding site 1366053003110 HD domain; Region: HD_4; pfam13328 1366053003111 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 1366053003112 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1366053003113 tape measure domain; Region: tape_meas_nterm; TIGR02675 1366053003114 Phage-related protein [Function unknown]; Region: gp18; COG4672 1366053003115 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1366053003116 MPN+ (JAMM) motif; other site 1366053003117 Zinc-binding site [ion binding]; other site 1366053003118 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1366053003119 NlpC/P60 family; Region: NLPC_P60; cl17555 1366053003120 Phage-related protein, tail component [Function unknown]; Region: COG4723 1366053003121 Phage-related protein, tail component [Function unknown]; Region: COG4733 1366053003122 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1366053003123 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1366053003124 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1366053003125 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1366053003126 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1366053003127 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1366053003128 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1366053003129 CoA binding domain; Region: CoA_binding; pfam02629 1366053003130 CoA-ligase; Region: Ligase_CoA; pfam00549 1366053003131 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1366053003132 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1366053003133 CoA-ligase; Region: Ligase_CoA; pfam00549 1366053003134 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1366053003135 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 1366053003136 E3 interaction surface; other site 1366053003137 lipoyl attachment site [posttranslational modification]; other site 1366053003138 e3 binding domain; Region: E3_binding; pfam02817 1366053003139 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1366053003140 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1366053003141 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 1366053003142 TPP-binding site [chemical binding]; other site 1366053003143 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1366053003144 dimer interface [polypeptide binding]; other site 1366053003145 PYR/PP interface [polypeptide binding]; other site 1366053003146 TPP binding site [chemical binding]; other site 1366053003147 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1366053003148 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1366053003149 putative peptidase; Provisional; Region: PRK11649 1366053003150 Peptidase family M23; Region: Peptidase_M23; pfam01551 1366053003151 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1366053003152 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1366053003153 dimerization domain [polypeptide binding]; other site 1366053003154 dimer interface [polypeptide binding]; other site 1366053003155 catalytic residues [active] 1366053003156 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1366053003157 DHH family; Region: DHH; pfam01368 1366053003158 DHHA1 domain; Region: DHHA1; pfam02272 1366053003159 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1366053003160 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1366053003161 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1366053003162 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1366053003163 ligand binding site [chemical binding]; other site 1366053003164 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1366053003165 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 1366053003166 active site 1366053003167 motif I; other site 1366053003168 motif II; other site 1366053003169 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1366053003170 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1366053003171 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1366053003172 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1366053003173 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 1366053003174 dimerization interface [polypeptide binding]; other site 1366053003175 Histidine kinase; Region: HisKA_3; pfam07730 1366053003176 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 1366053003177 ATP binding site [chemical binding]; other site 1366053003178 Mg2+ binding site [ion binding]; other site 1366053003179 G-X-G motif; other site 1366053003180 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1366053003181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1366053003182 Coenzyme A binding pocket [chemical binding]; other site 1366053003183 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 1366053003184 active site 1366053003185 dimerization interface [polypeptide binding]; other site 1366053003186 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1366053003187 hypothetical protein; Provisional; Region: PRK05170 1366053003188 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1366053003189 dimer interface [polypeptide binding]; other site 1366053003190 active site 1366053003191 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1366053003192 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 1366053003193 Walker A motif; other site 1366053003194 ATP binding site [chemical binding]; other site 1366053003195 Walker B motif; other site 1366053003196 arginine finger; other site 1366053003197 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1366053003198 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1366053003199 peptide binding site [polypeptide binding]; other site 1366053003200 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 1366053003201 dimer interface [polypeptide binding]; other site 1366053003202 conserved gate region; other site 1366053003203 putative PBP binding loops; other site 1366053003204 ABC-ATPase subunit interface; other site 1366053003205 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1366053003206 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 1366053003207 dimer interface [polypeptide binding]; other site 1366053003208 conserved gate region; other site 1366053003209 putative PBP binding loops; other site 1366053003210 ABC-ATPase subunit interface; other site 1366053003211 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1366053003212 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053003213 Walker A/P-loop; other site 1366053003214 ATP binding site [chemical binding]; other site 1366053003215 Q-loop/lid; other site 1366053003216 ABC transporter signature motif; other site 1366053003217 Walker B; other site 1366053003218 D-loop; other site 1366053003219 H-loop/switch region; other site 1366053003220 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1366053003221 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1366053003222 tartrate dehydrogenase; Region: TTC; TIGR02089 1366053003223 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1366053003224 SelR domain; Region: SelR; pfam01641 1366053003225 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1366053003226 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1366053003227 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1366053003228 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1366053003229 portal vertex protein; Provisional; Region: Q; PHA02536 1366053003230 Phage portal protein; Region: Phage_portal; pfam04860 1366053003231 terminase ATPase subunit; Provisional; Region: P; PHA02535 1366053003232 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1366053003233 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1366053003234 capsid-scaffolding protein; Provisional; Region: O; PHA02529 1366053003235 capsid protein; Provisional; Region: N; PHA02538 1366053003236 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1366053003237 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1366053003238 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1366053003239 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1366053003240 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1366053003241 catalytic residues [active] 1366053003242 phage lambda Rz1-like protein; Region: PHA02047 1366053003243 DksA-like zinc finger domain containing protein; Region: PHA00080 1366053003244 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1366053003245 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1366053003246 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1366053003247 Mu-like prophage protein [General function prediction only]; Region: COG3941 1366053003248 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053003249 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053003250 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053003251 Integrase core domain; Region: rve; pfam00665 1366053003252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053003253 Integrase core domain; Region: rve_3; pfam13683 1366053003254 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1366053003255 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1366053003256 baseplate wedge subunit; Provisional; Region: W; PHA02516 1366053003257 baseplate assembly protein; Provisional; Region: J; PHA02568 1366053003258 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1366053003259 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1366053003260 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1366053003261 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1366053003262 major tail sheath protein; Provisional; Region: FI; PHA02560 1366053003263 major tail tube protein; Provisional; Region: FII; PHA02600 1366053003264 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1366053003265 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1366053003266 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1366053003267 tail protein; Provisional; Region: D; PHA02561 1366053003268 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1366053003269 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1366053003270 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 1366053003271 Dimer interface [polypeptide binding]; other site 1366053003272 BRCT sequence motif; other site 1366053003273 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1366053003274 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 1366053003275 non-specific DNA binding site [nucleotide binding]; other site 1366053003276 salt bridge; other site 1366053003277 sequence-specific DNA binding site [nucleotide binding]; other site 1366053003278 Predicted transcriptional regulator [Transcription]; Region: COG2932 1366053003279 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 1366053003280 Catalytic site [active] 1366053003281 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 1366053003282 non-specific DNA binding site [nucleotide binding]; other site 1366053003283 salt bridge; other site 1366053003284 sequence-specific DNA binding site [nucleotide binding]; other site 1366053003285 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1366053003286 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1366053003287 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 1366053003288 dimer interface [polypeptide binding]; other site 1366053003289 ssDNA binding site [nucleotide binding]; other site 1366053003290 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1366053003291 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1366053003292 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 1366053003293 active site 1366053003294 DNA binding site [nucleotide binding] 1366053003295 Int/Topo IB signature motif; other site 1366053003296 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1366053003297 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1366053003298 active site 1366053003299 metal binding site [ion binding]; metal-binding site 1366053003300 exoribonuclease II; Provisional; Region: PRK05054 1366053003301 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1366053003302 RNB domain; Region: RNB; pfam00773 1366053003303 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 1366053003304 RNA binding site [nucleotide binding]; other site 1366053003305 Bor protein; Region: Lambda_Bor; pfam06291 1366053003306 Bor protein; Region: Lambda_Bor; pfam06291 1366053003307 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1366053003308 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1366053003309 NAD binding site [chemical binding]; other site 1366053003310 homotetramer interface [polypeptide binding]; other site 1366053003311 homodimer interface [polypeptide binding]; other site 1366053003312 substrate binding site [chemical binding]; other site 1366053003313 active site 1366053003314 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1366053003315 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 1366053003316 ligand binding site [chemical binding]; other site 1366053003317 flexible hinge region; other site 1366053003318 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 1366053003319 putative switch regulator; other site 1366053003320 non-specific DNA interactions [nucleotide binding]; other site 1366053003321 DNA binding site [nucleotide binding] 1366053003322 sequence specific DNA binding site [nucleotide binding]; other site 1366053003323 putative cAMP binding site [chemical binding]; other site 1366053003324 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 1366053003325 Ligand Binding Site [chemical binding]; other site 1366053003326 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1366053003327 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 1366053003328 motif 1; other site 1366053003329 active site 1366053003330 motif 2; other site 1366053003331 motif 3; other site 1366053003332 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1366053003333 DHHA1 domain; Region: DHHA1; pfam02272 1366053003334 carbon storage regulator; Provisional; Region: PRK01712 1366053003335 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1366053003336 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1366053003337 active site 1366053003338 tetramer interface; other site 1366053003339 condesin subunit F; Provisional; Region: PRK05260 1366053003340 condesin subunit E; Provisional; Region: PRK05256 1366053003341 cell division protein MukB; Provisional; Region: mukB; PRK04863 1366053003342 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1366053003343 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1366053003344 putative arabinose transporter; Provisional; Region: PRK03545 1366053003345 putative arabinose transporter; Provisional; Region: PRK03545 1366053003346 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1366053003347 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1366053003348 Sulfatase; Region: Sulfatase; cl17466 1366053003349 hypothetical protein; Provisional; Region: PRK13689 1366053003350 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1366053003351 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1366053003352 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1366053003353 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1366053003354 HlyD family secretion protein; Region: HlyD_3; pfam13437 1366053003355 multidrug efflux protein; Reviewed; Region: PRK09579 1366053003356 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1366053003357 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 1366053003358 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 1366053003359 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 1366053003360 active site 1366053003361 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1366053003362 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 1366053003363 motif II; other site 1366053003364 GMP synthase; Reviewed; Region: guaA; PRK00074 1366053003365 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1366053003366 AMP/PPi binding site [chemical binding]; other site 1366053003367 candidate oxyanion hole; other site 1366053003368 catalytic triad [active] 1366053003369 potential glutamine specificity residues [chemical binding]; other site 1366053003370 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 1366053003371 ATP Binding subdomain [chemical binding]; other site 1366053003372 Ligand Binding sites [chemical binding]; other site 1366053003373 Dimerization subdomain; other site 1366053003374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1366053003375 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1366053003376 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 1366053003377 23S rRNA interface [nucleotide binding]; other site 1366053003378 L3 interface [polypeptide binding]; other site 1366053003379 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1366053003380 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1366053003381 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1366053003382 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 1366053003383 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 1366053003384 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1366053003385 putative active site [active] 1366053003386 putative nucleic acid binding site [nucleotide binding]; other site 1366053003387 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1366053003388 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 1366053003389 active site 1366053003390 hypothetical protein; Validated; Region: PRK02101 1366053003391 Cation efflux family; Region: Cation_efflux; cl00316 1366053003392 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1366053003393 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 1366053003394 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1366053003395 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1366053003396 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 1366053003397 dimer interface [polypeptide binding]; other site 1366053003398 FMN binding site [chemical binding]; other site 1366053003399 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1366053003400 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1366053003401 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 1366053003402 dimer interface [polypeptide binding]; other site 1366053003403 motif 1; other site 1366053003404 active site 1366053003405 motif 2; other site 1366053003406 motif 3; other site 1366053003407 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1366053003408 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 1366053003409 putative tRNA-binding site [nucleotide binding]; other site 1366053003410 B3/4 domain; Region: B3_4; pfam03483 1366053003411 tRNA synthetase B5 domain; Region: B5; smart00874 1366053003412 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 1366053003413 dimer interface [polypeptide binding]; other site 1366053003414 motif 1; other site 1366053003415 motif 3; other site 1366053003416 motif 2; other site 1366053003417 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1366053003418 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 1366053003419 IHF dimer interface [polypeptide binding]; other site 1366053003420 IHF - DNA interface [nucleotide binding]; other site 1366053003421 NlpC/P60 family; Region: NLPC_P60; pfam00877 1366053003422 serine endoprotease; Provisional; Region: PRK10898 1366053003423 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1366053003424 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 1366053003425 protein binding site [polypeptide binding]; other site 1366053003426 cytidylate kinase; Provisional; Region: cmk; PRK00023 1366053003427 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 1366053003428 CMP-binding site; other site 1366053003429 The sites determining sugar specificity; other site 1366053003430 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1366053003431 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 1366053003432 RNA binding site [nucleotide binding]; other site 1366053003433 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 1366053003434 RNA binding site [nucleotide binding]; other site 1366053003435 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 1366053003436 RNA binding site [nucleotide binding]; other site 1366053003437 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 1366053003438 RNA binding site [nucleotide binding]; other site 1366053003439 S1_RPS1_repeat_ec5: 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_ec5; cd05690 1366053003440 RNA binding site [nucleotide binding]; other site 1366053003441 S1_RPS1_repeat_ec6: 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_ec6; cd05691 1366053003442 RNA binding site [nucleotide binding]; other site 1366053003443 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 1366053003444 IHF dimer interface [polypeptide binding]; other site 1366053003445 IHF - DNA interface [nucleotide binding]; other site 1366053003446 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1366053003447 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1366053003448 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 1366053003449 binding surface 1366053003450 TPR motif; other site 1366053003451 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 1366053003452 TPR motif; other site 1366053003453 binding surface 1366053003454 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 1366053003455 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 1366053003456 active site 1366053003457 dimer interface [polypeptide binding]; other site 1366053003458 translation initiation factor Sui1; Validated; Region: PRK06824 1366053003459 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1366053003460 putative rRNA binding site [nucleotide binding]; other site 1366053003461 lytic murein transglycosylase; Provisional; Region: PRK11619 1366053003462 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 1366053003463 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1366053003464 catalytic residue [active] 1366053003465 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1366053003466 Sm and related proteins; Region: Sm_like; cl00259 1366053003467 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1366053003468 putative oligomer interface [polypeptide binding]; other site 1366053003469 putative RNA binding site [nucleotide binding]; other site 1366053003470 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1366053003471 NusA N-terminal domain; Region: NusA_N; pfam08529 1366053003472 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 1366053003473 RNA binding site [nucleotide binding]; other site 1366053003474 homodimer interface [polypeptide binding]; other site 1366053003475 NusA-like KH domain; Region: KH_5; pfam13184 1366053003476 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 1366053003477 G-X-X-G motif; other site 1366053003478 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1366053003479 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1366053003480 translation initiation factor IF-2; Region: IF-2; TIGR00487 1366053003481 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1366053003482 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1366053003483 G1 box; other site 1366053003484 putative GEF interaction site [polypeptide binding]; other site 1366053003485 GTP/Mg2+ binding site [chemical binding]; other site 1366053003486 Switch I region; other site 1366053003487 G2 box; other site 1366053003488 G3 box; other site 1366053003489 Switch II region; other site 1366053003490 G4 box; other site 1366053003491 G5 box; other site 1366053003492 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 1366053003493 Translation-initiation factor 2; Region: IF-2; pfam11987 1366053003494 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 1366053003495 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1366053003496 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1366053003497 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1366053003498 RNA binding site [nucleotide binding]; other site 1366053003499 active site 1366053003500 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1366053003501 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1366053003502 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 1366053003503 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1366053003504 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 1366053003505 nucleoside/Zn binding site; other site 1366053003506 dimer interface [polypeptide binding]; other site 1366053003507 catalytic motif [active] 1366053003508 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1366053003509 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 1366053003510 ATP binding site [chemical binding]; other site 1366053003511 Mg++ binding site [ion binding]; other site 1366053003512 motif III; other site 1366053003513 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 1366053003514 nucleotide binding region [chemical binding]; other site 1366053003515 ATP-binding site [chemical binding]; other site 1366053003516 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1366053003517 putative RNA binding site [nucleotide binding]; other site 1366053003518 lipoprotein NlpI; Provisional; Region: PRK11189 1366053003519 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 1366053003520 binding surface 1366053003521 TPR motif; other site 1366053003522 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1366053003523 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1366053003524 RNase E interface [polypeptide binding]; other site 1366053003525 trimer interface [polypeptide binding]; other site 1366053003526 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1366053003527 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1366053003528 RNase E interface [polypeptide binding]; other site 1366053003529 trimer interface [polypeptide binding]; other site 1366053003530 active site 1366053003531 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 1366053003532 putative nucleic acid binding region [nucleotide binding]; other site 1366053003533 G-X-X-G motif; other site 1366053003534 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 1366053003535 RNA binding site [nucleotide binding]; other site 1366053003536 domain interface; other site 1366053003537 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1366053003538 PAS domain; Region: PAS; smart00091 1366053003539 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 1366053003540 dimer interface [polypeptide binding]; other site 1366053003541 phosphorylation site [posttranslational modification] 1366053003542 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 1366053003543 ATP binding site [chemical binding]; other site 1366053003544 Mg2+ binding site [ion binding]; other site 1366053003545 G-X-G motif; other site 1366053003546 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1366053003547 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 1366053003548 active site 1366053003549 phosphorylation site [posttranslational modification] 1366053003550 intermolecular recognition site; other site 1366053003551 dimerization interface [polypeptide binding]; other site 1366053003552 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 1366053003553 DNA binding site [nucleotide binding] 1366053003554 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1366053003555 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1366053003556 Walker A/P-loop; other site 1366053003557 ATP binding site [chemical binding]; other site 1366053003558 Q-loop/lid; other site 1366053003559 ABC transporter signature motif; other site 1366053003560 Walker B; other site 1366053003561 D-loop; other site 1366053003562 H-loop/switch region; other site 1366053003563 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1366053003564 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 1366053003565 dimer interface [polypeptide binding]; other site 1366053003566 conserved gate region; other site 1366053003567 putative PBP binding loops; other site 1366053003568 ABC-ATPase subunit interface; other site 1366053003569 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 1366053003570 dimer interface [polypeptide binding]; other site 1366053003571 conserved gate region; other site 1366053003572 putative PBP binding loops; other site 1366053003573 ABC-ATPase subunit interface; other site 1366053003574 PBP superfamily domain; Region: PBP_like_2; cl17296 1366053003575 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1366053003576 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 1366053003577 CAP-like domain; other site 1366053003578 active site 1366053003579 primary dimer interface [polypeptide binding]; other site 1366053003580 aspartate kinase III; Validated; Region: PRK09084 1366053003581 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 1366053003582 nucleotide binding site [chemical binding]; other site 1366053003583 substrate binding site [chemical binding]; other site 1366053003584 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1366053003585 lysine allosteric regulatory site; other site 1366053003586 dimer interface [polypeptide binding]; other site 1366053003587 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1366053003588 dimer interface [polypeptide binding]; other site 1366053003589 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1366053003590 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1366053003591 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1366053003592 active site turn [active] 1366053003593 phosphorylation site [posttranslational modification] 1366053003594 hypothetical protein; Provisional; Region: PRK05423 1366053003595 exopolyphosphatase; Provisional; Region: PRK10854 1366053003596 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1366053003597 Domain of unknown function (DUF386); Region: DUF386; cl01047 1366053003598 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1366053003599 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1366053003600 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 1366053003601 putative active site [active] 1366053003602 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1366053003603 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1366053003604 active site 1366053003605 metal binding site [ion binding]; metal-binding site 1366053003606 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1366053003607 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1366053003608 serine/threonine transporter SstT; Provisional; Region: PRK13628 1366053003609 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1366053003610 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1366053003611 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1366053003612 Competence protein; Region: Competence; pfam03772 1366053003613 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1366053003614 Transposase IS200 like; Region: Y1_Tnp; cl00848 1366053003615 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1366053003616 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1366053003617 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1366053003618 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1366053003619 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1366053003620 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1366053003621 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1366053003622 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1366053003623 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1366053003624 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1366053003625 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1366053003626 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 1366053003627 protein-splicing catalytic site; other site 1366053003628 thioester formation/cholesterol transfer; other site 1366053003629 Pretoxin HINT domain; Region: PT-HINT; pfam07591 1366053003630 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 1366053003631 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 1366053003632 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 1366053003633 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1366053003634 TPR repeat; Region: TPR_11; pfam13414 1366053003635 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 1366053003636 binding surface 1366053003637 TPR motif; other site 1366053003638 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1366053003639 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1366053003640 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 1366053003641 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1366053003642 ATP cone domain; Region: ATP-cone; pfam03477 1366053003643 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1366053003644 active site 1366053003645 dimer interface [polypeptide binding]; other site 1366053003646 catalytic residues [active] 1366053003647 effector binding site; other site 1366053003648 R2 peptide binding site; other site 1366053003649 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1366053003650 dimer interface [polypeptide binding]; other site 1366053003651 putative radical transfer pathway; other site 1366053003652 diiron center [ion binding]; other site 1366053003653 tyrosyl radical; other site 1366053003654 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1366053003655 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1366053003656 FtsX-like permease family; Region: FtsX; pfam02687 1366053003657 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053003658 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053003659 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053003660 Integrase core domain; Region: rve; pfam00665 1366053003661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053003662 Integrase core domain; Region: rve_3; pfam13683 1366053003663 Response regulator receiver domain; Region: Response_reg; pfam00072 1366053003664 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 1366053003665 active site 1366053003666 phosphorylation site [posttranslational modification] 1366053003667 intermolecular recognition site; other site 1366053003668 dimerization interface [polypeptide binding]; other site 1366053003669 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 1366053003670 homodimer interface [polypeptide binding]; other site 1366053003671 active site 1366053003672 putative chemical substrate binding site [chemical binding]; other site 1366053003673 metal binding site [ion binding]; metal-binding site 1366053003674 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 1366053003675 metal binding site [ion binding]; metal-binding site 1366053003676 homodimer interface [polypeptide binding]; other site 1366053003677 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1366053003678 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1366053003679 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1366053003680 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1366053003681 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1366053003682 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1366053003683 G4 box; other site 1366053003684 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1366053003685 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 1366053003686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053003687 homodimer interface [polypeptide binding]; other site 1366053003688 catalytic residue [active] 1366053003689 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1366053003690 Helicase; Region: Helicase_RecD; pfam05127 1366053003691 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1366053003692 Coenzyme A binding pocket [chemical binding]; other site 1366053003693 metal-binding heat shock protein; Provisional; Region: PRK00016 1366053003694 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 1366053003695 MoaE homodimer interface [polypeptide binding]; other site 1366053003696 MoaD interaction [polypeptide binding]; other site 1366053003697 active site residues [active] 1366053003698 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1366053003699 MoaE interaction surface [polypeptide binding]; other site 1366053003700 MoeB interaction surface [polypeptide binding]; other site 1366053003701 thiocarboxylated glycine; other site 1366053003702 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 1366053003703 trimer interface [polypeptide binding]; other site 1366053003704 dimer interface [polypeptide binding]; other site 1366053003705 putative active site [active] 1366053003706 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1366053003707 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 1366053003708 FeS/SAM binding site; other site 1366053003709 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1366053003710 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1366053003711 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 1366053003712 DNA binding residues [nucleotide binding] 1366053003713 dimerization interface [polypeptide binding]; other site 1366053003714 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1366053003715 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 1366053003716 ligand binding site [chemical binding]; other site 1366053003717 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1366053003718 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1366053003719 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1366053003720 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1366053003721 molybdopterin cofactor binding site [chemical binding]; other site 1366053003722 substrate binding site [chemical binding]; other site 1366053003723 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1366053003724 molybdopterin cofactor binding site; other site 1366053003725 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1366053003726 DNA methylase; Region: N6_N4_Mtase; pfam01555 1366053003727 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1366053003728 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1366053003729 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 1366053003730 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1366053003731 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 1366053003732 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1366053003733 dimer interface [polypeptide binding]; other site 1366053003734 active site 1366053003735 citrylCoA binding site [chemical binding]; other site 1366053003736 NADH binding [chemical binding]; other site 1366053003737 cationic pore residues; other site 1366053003738 oxalacetate/citrate binding site [chemical binding]; other site 1366053003739 coenzyme A binding site [chemical binding]; other site 1366053003740 catalytic triad [active] 1366053003741 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1366053003742 isocitrate dehydrogenase; Validated; Region: PRK07362 1366053003743 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1366053003744 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1366053003745 substrate binding site [chemical binding]; other site 1366053003746 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1366053003747 substrate binding site [chemical binding]; other site 1366053003748 ligand binding site [chemical binding]; other site 1366053003749 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1366053003750 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1366053003751 molybdopterin cofactor binding site [chemical binding]; other site 1366053003752 substrate binding site [chemical binding]; other site 1366053003753 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1366053003754 molybdopterin cofactor binding site; other site 1366053003755 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1366053003756 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1366053003757 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1366053003758 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1366053003759 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 1366053003760 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1366053003761 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1366053003762 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1366053003763 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1366053003764 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1366053003765 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1366053003766 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1366053003767 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 1366053003768 homodimer interface [polypeptide binding]; other site 1366053003769 substrate-cofactor binding pocket; other site 1366053003770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053003771 catalytic residue [active] 1366053003772 chloroplast protein import component Toc86/159, G and M domains; Region: 3a0901s04IAP86; TIGR00993 1366053003773 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 1366053003774 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1366053003775 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1366053003776 Zonular occludens toxin (Zot); Region: Zot; cl17485 1366053003777 Zonular occludens toxin (Zot); Region: Zot; cl17485 1366053003778 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053003779 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053003780 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053003781 Integrase core domain; Region: rve; pfam00665 1366053003782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053003783 Integrase core domain; Region: rve_3; pfam13683 1366053003784 Integrase core domain; Region: rve; pfam00665 1366053003785 Integrase core domain; Region: rve_3; pfam13683 1366053003786 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053003787 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053003788 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 1366053003789 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1366053003790 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 1366053003791 active site 1366053003792 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1366053003793 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1366053003794 active site 1366053003795 metal binding site [ion binding]; metal-binding site 1366053003796 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1366053003797 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1366053003798 propionate/acetate kinase; Provisional; Region: PRK12379 1366053003799 phosphate acetyltransferase; Reviewed; Region: PRK05632 1366053003800 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 1366053003801 DRTGG domain; Region: DRTGG; pfam07085 1366053003802 phosphate acetyltransferase; Region: pta; TIGR00651 1366053003803 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_cladeA; cd00883 1366053003804 active site clefts [active] 1366053003805 zinc binding site [ion binding]; other site 1366053003806 dimer interface [polypeptide binding]; other site 1366053003807 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 1366053003808 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1366053003809 PYR/PP interface [polypeptide binding]; other site 1366053003810 dimer interface [polypeptide binding]; other site 1366053003811 TPP binding site [chemical binding]; other site 1366053003812 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1366053003813 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 1366053003814 TPP-binding site [chemical binding]; other site 1366053003815 dimer interface [polypeptide binding]; other site 1366053003816 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1366053003817 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1366053003818 putative valine binding site [chemical binding]; other site 1366053003819 dimer interface [polypeptide binding]; other site 1366053003820 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1366053003821 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1366053003822 EamA-like transporter family; Region: EamA; pfam00892 1366053003823 EamA-like transporter family; Region: EamA; pfam00892 1366053003824 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053003825 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053003826 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053003827 Integrase core domain; Region: rve; pfam00665 1366053003828 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053003829 Integrase core domain; Region: rve_3; pfam13683 1366053003830 N-acetylglutamate synthase; Validated; Region: PRK05279 1366053003831 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1366053003832 putative feedback inhibition sensing region; other site 1366053003833 putative nucleotide binding site [chemical binding]; other site 1366053003834 putative substrate binding site [chemical binding]; other site 1366053003835 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1366053003836 Coenzyme A binding pocket [chemical binding]; other site 1366053003837 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1366053003838 proline aminopeptidase P II; Provisional; Region: PRK10879 1366053003839 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1366053003840 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1366053003841 active site 1366053003842 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 1366053003843 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 1366053003844 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 1366053003845 active site 1366053003846 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1366053003847 thymidine kinase; Provisional; Region: PRK04296 1366053003848 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1366053003849 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1366053003850 Sulfatase; Region: Sulfatase; cl17466 1366053003851 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1366053003852 putative transporter; Provisional; Region: PRK10484 1366053003853 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1366053003854 Na binding site [ion binding]; other site 1366053003855 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1366053003856 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 1366053003857 ligand binding site [chemical binding]; other site 1366053003858 flexible hinge region; other site 1366053003859 Predicted permeases [General function prediction only]; Region: COG0730 1366053003860 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1366053003861 Glycoprotease family; Region: Peptidase_M22; pfam00814 1366053003862 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1366053003863 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1366053003864 Predicted metalloprotease [General function prediction only]; Region: COG2321 1366053003865 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1366053003866 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1366053003867 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1366053003868 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1366053003869 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1366053003870 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1366053003871 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 1366053003872 dimerization interface [polypeptide binding]; other site 1366053003873 putative DNA binding site [nucleotide binding]; other site 1366053003874 putative Zn2+ binding site [ion binding]; other site 1366053003875 AsnC family; Region: AsnC_trans_reg; pfam01037 1366053003876 ribonuclease D; Provisional; Region: PRK10829 1366053003877 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1366053003878 catalytic site [active] 1366053003879 putative active site [active] 1366053003880 putative substrate binding site [chemical binding]; other site 1366053003881 HRDC domain; Region: HRDC; pfam00570 1366053003882 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1366053003883 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1366053003884 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1366053003885 AAA domain; Region: AAA_26; pfam13500 1366053003886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1366053003887 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1366053003888 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 1366053003889 S-adenosylmethionine binding site [chemical binding]; other site 1366053003890 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1366053003891 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1366053003892 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1366053003893 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1366053003894 putative substrate binding pocket [chemical binding]; other site 1366053003895 dimer interface [polypeptide binding]; other site 1366053003896 phosphate binding site [ion binding]; other site 1366053003897 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1366053003898 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 1366053003899 active site 1366053003900 interdomain interaction site; other site 1366053003901 putative metal-binding site [ion binding]; other site 1366053003902 nucleotide binding site [chemical binding]; other site 1366053003903 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 1366053003904 domain I; other site 1366053003905 DNA binding groove [nucleotide binding] 1366053003906 phosphate binding site [ion binding]; other site 1366053003907 domain II; other site 1366053003908 domain III; other site 1366053003909 nucleotide binding site [chemical binding]; other site 1366053003910 catalytic site [active] 1366053003911 domain IV; other site 1366053003912 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1366053003913 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1366053003914 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1366053003915 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1366053003916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1366053003917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053003918 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 1366053003919 putative effector binding pocket; other site 1366053003920 dimerization interface [polypeptide binding]; other site 1366053003921 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1366053003922 zinc binding site [ion binding]; other site 1366053003923 putative ligand binding site [chemical binding]; other site 1366053003924 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1366053003925 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1366053003926 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1366053003927 C-terminal domain interface [polypeptide binding]; other site 1366053003928 putative GSH binding site (G-site) [chemical binding]; other site 1366053003929 dimer interface [polypeptide binding]; other site 1366053003930 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1366053003931 dimer interface [polypeptide binding]; other site 1366053003932 N-terminal domain interface [polypeptide binding]; other site 1366053003933 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1366053003934 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1366053003935 active site 1366053003936 homodimer interface [polypeptide binding]; other site 1366053003937 homotetramer interface [polypeptide binding]; other site 1366053003938 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1366053003939 ATP-grasp domain; Region: ATP-grasp; pfam02222 1366053003940 excinuclease ABC subunit B; Provisional; Region: PRK05298 1366053003941 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 1366053003942 ATP binding site [chemical binding]; other site 1366053003943 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 1366053003944 nucleotide binding region [chemical binding]; other site 1366053003945 ATP-binding site [chemical binding]; other site 1366053003946 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1366053003947 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1366053003948 Imelysin; Region: Peptidase_M75; pfam09375 1366053003949 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1366053003950 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1366053003951 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1366053003952 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1366053003953 active site 1366053003954 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1366053003955 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1366053003956 putative active site [active] 1366053003957 exonuclease I; Provisional; Region: sbcB; PRK11779 1366053003958 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1366053003959 active site 1366053003960 catalytic site [active] 1366053003961 substrate binding site [chemical binding]; other site 1366053003962 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1366053003963 Phage-related protein, tail component [Function unknown]; Region: COG4733 1366053003964 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1366053003965 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1366053003966 Phage-related protein, tail component [Function unknown]; Region: COG4723 1366053003967 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1366053003968 MPN+ (JAMM) motif; other site 1366053003969 Zinc-binding site [ion binding]; other site 1366053003970 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1366053003971 NlpC/P60 family; Region: NLPC_P60; cl17555 1366053003972 Phage-related protein [Function unknown]; Region: gp18; COG4672 1366053003973 Phage minor tail protein L; Region: Phage_tail_L; cl01908 1366053003974 Phage minor tail protein; Region: Phage_min_tail; cl01940 1366053003975 YcfA-like protein; Region: YcfA; pfam07927 1366053003976 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1366053003977 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 1366053003978 Phage major tail protein 2; Region: Phage_tail_2; cl11463 1366053003979 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 1366053003980 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1366053003981 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1366053003982 Phage terminase large subunit; Region: Terminase_3; cl12054 1366053003983 Terminase-like family; Region: Terminase_6; pfam03237 1366053003984 Terminase small subunit; Region: Terminase_2; pfam03592 1366053003985 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1366053003986 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1366053003987 catalytic residues [active] 1366053003988 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1366053003989 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1366053003990 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 1366053003991 MT-A70; Region: MT-A70; cl01947 1366053003992 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1366053003993 replicative DNA helicase; Region: DnaB; TIGR00665 1366053003994 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 1366053003995 Walker A motif; other site 1366053003996 ATP binding site [chemical binding]; other site 1366053003997 Walker B motif; other site 1366053003998 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1366053003999 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 1366053004000 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1366053004001 non-specific DNA binding site [nucleotide binding]; other site 1366053004002 salt bridge; other site 1366053004003 sequence-specific DNA binding site [nucleotide binding]; other site 1366053004004 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 1366053004005 non-specific DNA binding site [nucleotide binding]; other site 1366053004006 salt bridge; other site 1366053004007 sequence-specific DNA binding site [nucleotide binding]; other site 1366053004008 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 1366053004009 Catalytic site [active] 1366053004010 Haemolysin XhlA; Region: XhlA; pfam10779 1366053004011 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053004012 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053004013 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053004014 Integrase core domain; Region: rve; pfam00665 1366053004015 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053004016 Integrase core domain; Region: rve_3; pfam13683 1366053004017 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 1366053004018 sequence-specific DNA binding site [nucleotide binding]; other site 1366053004019 salt bridge; other site 1366053004020 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1366053004021 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1366053004022 metal binding site [ion binding]; metal-binding site 1366053004023 RecT family; Region: RecT; pfam03837 1366053004024 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1366053004025 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1366053004026 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1366053004027 putative metal binding site [ion binding]; other site 1366053004028 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1366053004029 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1366053004030 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 1366053004031 active site 1366053004032 DNA binding site [nucleotide binding] 1366053004033 Int/Topo IB signature motif; other site 1366053004034 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1366053004035 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1366053004036 putative dimer interface [polypeptide binding]; other site 1366053004037 putative anticodon binding site; other site 1366053004038 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1366053004039 homodimer interface [polypeptide binding]; other site 1366053004040 motif 1; other site 1366053004041 motif 2; other site 1366053004042 active site 1366053004043 motif 3; other site 1366053004044 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 1366053004045 FeS/SAM binding site; other site 1366053004046 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1366053004047 elongation factor P; Validated; Region: PRK00529 1366053004048 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1366053004049 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 1366053004050 RNA binding site [nucleotide binding]; other site 1366053004051 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 1366053004052 RNA binding site [nucleotide binding]; other site 1366053004053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1366053004054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053004055 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 1366053004056 putative effector binding pocket; other site 1366053004057 putative dimerization interface [polypeptide binding]; other site 1366053004058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1366053004059 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1366053004060 NAD(P) binding site [chemical binding]; other site 1366053004061 active site 1366053004062 SnoaL-like domain; Region: SnoaL_4; pfam13577 1366053004063 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1366053004064 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1366053004065 active site 1366053004066 HIGH motif; other site 1366053004067 nucleotide binding site [chemical binding]; other site 1366053004068 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1366053004069 KMSKS motif; other site 1366053004070 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1366053004071 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1366053004072 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1366053004073 DNA binding site [nucleotide binding] 1366053004074 domain linker motif; other site 1366053004075 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1366053004076 glutamate dehydrogenase; Provisional; Region: PRK09414 1366053004077 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1366053004078 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1366053004079 NAD(P) binding site [chemical binding]; other site 1366053004080 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1366053004081 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1366053004082 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1366053004083 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1366053004084 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 1366053004085 homotrimer interaction site [polypeptide binding]; other site 1366053004086 putative active site [active] 1366053004087 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1366053004088 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1366053004089 integrase; Provisional; Region: PRK09692 1366053004090 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1366053004091 active site 1366053004092 Int/Topo IB signature motif; other site 1366053004093 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1366053004094 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1366053004095 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1366053004096 Ash protein family; Region: Phage_ASH; pfam10554 1366053004097 Ash protein family; Region: Phage_ASH; pfam10554 1366053004098 silicon transporter; Region: sit; TIGR00811 1366053004099 Domain of unknown function (DUF927); Region: DUF927; cl12098 1366053004100 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1366053004101 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1366053004102 active site 1366053004103 Int/Topo IB signature motif; other site 1366053004104 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1366053004105 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1366053004106 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1366053004107 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1366053004108 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 1366053004109 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1366053004110 catalytic site [active] 1366053004111 Asp-box motif; other site 1366053004112 Autotransporter beta-domain; Region: Autotransporter; cl17461 1366053004113 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053004114 active site 1366053004115 peptidase PmbA; Provisional; Region: PRK11040 1366053004116 hypothetical protein; Provisional; Region: PRK05255 1366053004117 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1366053004118 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1366053004119 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1366053004120 Flavoprotein; Region: Flavoprotein; pfam02441 1366053004121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1366053004122 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1366053004123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053004124 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1366053004125 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 1366053004126 ligand-binding site [chemical binding]; other site 1366053004127 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1366053004128 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1366053004129 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053004130 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053004131 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1366053004132 Predicted transcriptional regulator [Transcription]; Region: COG2932 1366053004133 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 1366053004134 Catalytic site [active] 1366053004135 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 1366053004136 CPxP motif; other site 1366053004137 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1366053004138 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1366053004139 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1366053004140 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 1366053004141 DNA-binding site [nucleotide binding]; DNA binding site 1366053004142 RNA-binding motif; other site 1366053004143 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1366053004144 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1366053004145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053004146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053004147 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1366053004148 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1366053004149 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1366053004150 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1366053004151 Walker A/P-loop; other site 1366053004152 ATP binding site [chemical binding]; other site 1366053004153 Q-loop/lid; other site 1366053004154 ABC transporter signature motif; other site 1366053004155 Walker B; other site 1366053004156 D-loop; other site 1366053004157 H-loop/switch region; other site 1366053004158 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1366053004159 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 1366053004160 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053004161 TM-ABC transporter signature motif; other site 1366053004162 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053004163 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 1366053004164 TM-ABC transporter signature motif; other site 1366053004165 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1366053004166 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1366053004167 putative N- and C-terminal domain interface [polypeptide binding]; other site 1366053004168 putative active site [active] 1366053004169 MgATP binding site [chemical binding]; other site 1366053004170 catalytic site [active] 1366053004171 metal binding site [ion binding]; metal-binding site 1366053004172 putative carbohydrate binding site [chemical binding]; other site 1366053004173 putative inner membrane protein; Provisional; Region: PRK11099 1366053004174 putative inner membrane protein; Provisional; Region: PRK11099 1366053004175 hypothetical protein; Provisional; Region: PRK11018 1366053004176 CPxP motif; other site 1366053004177 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1366053004178 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 1366053004179 FMN binding site [chemical binding]; other site 1366053004180 substrate binding site [chemical binding]; other site 1366053004181 putative catalytic residue [active] 1366053004182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1366053004183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053004184 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 1366053004185 dimerization interface [polypeptide binding]; other site 1366053004186 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 1366053004187 transcriptional regulator NrdR; Region: TIGR00244 1366053004188 ATP cone domain; Region: ATP-cone; pfam03477 1366053004189 YcgL domain; Region: YcgL; pfam05166 1366053004190 replicative DNA helicase; Validated; Region: PRK06904 1366053004191 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1366053004192 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 1366053004193 Walker A motif; other site 1366053004194 ATP binding site [chemical binding]; other site 1366053004195 Walker B motif; other site 1366053004196 DNA binding loops [nucleotide binding] 1366053004197 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1366053004198 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1366053004199 putative ligand binding residues [chemical binding]; other site 1366053004200 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1366053004201 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 1366053004202 ABC-ATPase subunit interface; other site 1366053004203 dimer interface [polypeptide binding]; other site 1366053004204 putative PBP binding regions; other site 1366053004205 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 1366053004206 dimer interface [polypeptide binding]; other site 1366053004207 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 1366053004208 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1366053004209 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1366053004210 Walker A/P-loop; other site 1366053004211 ATP binding site [chemical binding]; other site 1366053004212 Q-loop/lid; other site 1366053004213 ABC transporter signature motif; other site 1366053004214 Walker B; other site 1366053004215 D-loop; other site 1366053004216 H-loop/switch region; other site 1366053004217 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 1366053004218 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1366053004219 metal binding triad; other site 1366053004220 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1366053004221 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1366053004222 Zn2+ binding site [ion binding]; other site 1366053004223 Mg2+ binding site [ion binding]; other site 1366053004224 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1366053004225 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 1366053004226 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1366053004227 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1366053004228 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1366053004229 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1366053004230 homodimer interface [polypeptide binding]; other site 1366053004231 substrate-cofactor binding pocket; other site 1366053004232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053004233 catalytic residue [active] 1366053004234 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1366053004235 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1366053004236 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1366053004237 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1366053004238 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1366053004239 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1366053004240 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 1366053004241 hinge; other site 1366053004242 active site 1366053004243 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1366053004244 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 1366053004245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053004246 homodimer interface [polypeptide binding]; other site 1366053004247 catalytic residue [active] 1366053004248 xanthine permease; Region: pbuX; TIGR03173 1366053004249 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1366053004250 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 1366053004251 Walker A motif; other site 1366053004252 ATP binding site [chemical binding]; other site 1366053004253 Walker B motif; other site 1366053004254 arginine finger; other site 1366053004255 Peptidase family M41; Region: Peptidase_M41; pfam01434 1366053004256 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1366053004257 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 1366053004258 S-adenosylmethionine binding site [chemical binding]; other site 1366053004259 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053004260 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053004261 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1366053004262 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1366053004263 Substrate binding site; other site 1366053004264 Mg++ binding site; other site 1366053004265 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 1366053004266 active site 1366053004267 substrate binding site [chemical binding]; other site 1366053004268 CoA binding site [chemical binding]; other site 1366053004269 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1366053004270 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1366053004271 trimer interface [polypeptide binding]; other site 1366053004272 eyelet of channel; other site 1366053004273 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1366053004274 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1366053004275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1366053004276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1366053004277 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1366053004278 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1366053004279 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 1366053004280 E3 interaction surface; other site 1366053004281 lipoyl attachment site [posttranslational modification]; other site 1366053004282 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 1366053004283 E3 interaction surface; other site 1366053004284 lipoyl attachment site [posttranslational modification]; other site 1366053004285 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 1366053004286 E3 interaction surface; other site 1366053004287 lipoyl attachment site [posttranslational modification]; other site 1366053004288 e3 binding domain; Region: E3_binding; pfam02817 1366053004289 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1366053004290 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1366053004291 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1366053004292 dimer interface [polypeptide binding]; other site 1366053004293 TPP-binding site [chemical binding]; other site 1366053004294 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1366053004295 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 1366053004296 quinone interaction residues [chemical binding]; other site 1366053004297 active site 1366053004298 catalytic residues [active] 1366053004299 FMN binding site [chemical binding]; other site 1366053004300 substrate binding site [chemical binding]; other site 1366053004301 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1366053004302 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1366053004303 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053004304 active site 1366053004305 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1366053004306 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1366053004307 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1366053004308 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1366053004309 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1366053004310 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1366053004311 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1366053004312 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1366053004313 Walker A/P-loop; other site 1366053004314 ATP binding site [chemical binding]; other site 1366053004315 Q-loop/lid; other site 1366053004316 ABC transporter signature motif; other site 1366053004317 Walker B; other site 1366053004318 D-loop; other site 1366053004319 H-loop/switch region; other site 1366053004320 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1366053004321 LrgA family; Region: LrgA; cl00608 1366053004322 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1366053004323 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 1366053004324 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1366053004325 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1366053004326 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053004327 Walker A/P-loop; other site 1366053004328 ATP binding site [chemical binding]; other site 1366053004329 Q-loop/lid; other site 1366053004330 ABC transporter signature motif; other site 1366053004331 Walker B; other site 1366053004332 D-loop; other site 1366053004333 H-loop/switch region; other site 1366053004334 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1366053004335 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; cd06574 1366053004336 TM-ABC transporter signature motif; other site 1366053004337 putative transporter; Provisional; Region: PRK11660 1366053004338 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1366053004339 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1366053004340 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 1366053004341 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1366053004342 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1366053004343 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1366053004344 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1366053004345 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1366053004346 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 1366053004347 dimer interface [polypeptide binding]; other site 1366053004348 ssDNA binding site [nucleotide binding]; other site 1366053004349 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1366053004350 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 1366053004351 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1366053004352 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1366053004353 Integrase core domain; Region: rve; pfam00665 1366053004354 Integrase core domain; Region: rve_3; pfam13683 1366053004355 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053004356 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053004357 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1366053004358 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 1366053004359 active site 1366053004360 catalytic residues [active] 1366053004361 DNA binding site [nucleotide binding] 1366053004362 Int/Topo IB signature motif; other site 1366053004363 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1366053004364 Putative helicase; Region: TraI_2; pfam07514 1366053004365 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1366053004366 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1366053004367 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1366053004368 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1366053004369 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1366053004370 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1366053004371 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 1366053004372 catalytic residue [active] 1366053004373 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1366053004374 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1366053004375 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1366053004376 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1366053004377 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1366053004378 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1366053004379 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1366053004380 TraK protein; Region: TraK; pfam06586 1366053004381 Protein of unknown function (DUF2895); Region: DUF2895; pfam11444 1366053004382 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1366053004383 Protein of unknown function (DUF2976); Region: DUF2976; pfam11190 1366053004384 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1366053004385 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1366053004386 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1366053004387 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1366053004388 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1366053004389 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1366053004390 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1366053004391 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 1366053004392 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1366053004393 catalytic residue [active] 1366053004394 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1366053004395 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1366053004396 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1366053004397 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1366053004398 DNA topoisomerase III; Provisional; Region: PRK07726 1366053004399 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1366053004400 active site 1366053004401 putative interdomain interaction site [polypeptide binding]; other site 1366053004402 putative metal-binding site [ion binding]; other site 1366053004403 putative nucleotide binding site [chemical binding]; other site 1366053004404 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 1366053004405 domain I; other site 1366053004406 DNA binding groove [nucleotide binding] 1366053004407 phosphate binding site [ion binding]; other site 1366053004408 domain II; other site 1366053004409 domain III; other site 1366053004410 nucleotide binding site [chemical binding]; other site 1366053004411 catalytic site [active] 1366053004412 domain IV; other site 1366053004413 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1366053004414 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1366053004415 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1366053004416 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1366053004417 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1366053004418 ParB-like nuclease domain; Region: ParBc; pfam02195 1366053004419 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1366053004420 replicative DNA helicase; Region: DnaB; TIGR00665 1366053004421 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 1366053004422 Walker A motif; other site 1366053004423 ATP binding site [chemical binding]; other site 1366053004424 Walker B motif; other site 1366053004425 DNA binding loops [nucleotide binding] 1366053004426 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1366053004427 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 1366053004428 P-loop; other site 1366053004429 Magnesium ion binding site [ion binding]; other site 1366053004430 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1366053004431 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 1366053004432 generic binding surface II; other site 1366053004433 generic binding surface I; other site 1366053004434 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1366053004435 MltA specific insert domain; Region: MltA; smart00925 1366053004436 3D domain; Region: 3D; pfam06725 1366053004437 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1366053004438 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 1366053004439 active site 1366053004440 tetramer interface [polypeptide binding]; other site 1366053004441 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053004442 active site 1366053004443 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1366053004444 Colicin V production protein; Region: Colicin_V; cl00567 1366053004445 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1366053004446 RNA/DNA hybrid binding site [nucleotide binding]; other site 1366053004447 active site 1366053004448 argininosuccinate synthase; Validated; Region: PRK05370 1366053004449 argininosuccinate synthase; Provisional; Region: PRK13820 1366053004450 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1366053004451 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1366053004452 putative active site [active] 1366053004453 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1366053004454 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1366053004455 putative metal binding site; other site 1366053004456 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1366053004457 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; cd01610 1366053004458 active site 1366053004459 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1366053004460 fructokinase; Reviewed; Region: PRK09557 1366053004461 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1366053004462 nucleotide binding site [chemical binding]; other site 1366053004463 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1366053004464 Sulfatase; Region: Sulfatase; pfam00884 1366053004465 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1366053004466 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1366053004467 MOSC domain; Region: MOSC; pfam03473 1366053004468 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1366053004469 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1366053004470 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1366053004471 substrate binding pocket [chemical binding]; other site 1366053004472 chain length determination region; other site 1366053004473 substrate-Mg2+ binding site; other site 1366053004474 catalytic residues [active] 1366053004475 aspartate-rich region 1; other site 1366053004476 active site lid residues [active] 1366053004477 aspartate-rich region 2; other site 1366053004478 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1366053004479 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 1366053004480 putative active site [active] 1366053004481 putative dimer interface [polypeptide binding]; other site 1366053004482 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1366053004483 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 1366053004484 ABC-ATPase subunit interface; other site 1366053004485 dimer interface [polypeptide binding]; other site 1366053004486 putative PBP binding regions; other site 1366053004487 recombination factor protein RarA; Reviewed; Region: PRK13342 1366053004488 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 1366053004489 Walker A motif; other site 1366053004490 ATP binding site [chemical binding]; other site 1366053004491 Walker B motif; other site 1366053004492 arginine finger; other site 1366053004493 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1366053004494 rod shape-determining protein MreD; Region: MreD; cl01087 1366053004495 rod shape-determining protein MreC; Provisional; Region: PRK13922 1366053004496 rod shape-determining protein MreC; Region: MreC; pfam04085 1366053004497 rod shape-determining protein MreB; Provisional; Region: PRK13927 1366053004498 MreB and similar proteins; Region: MreB_like; cd10225 1366053004499 nucleotide binding site [chemical binding]; other site 1366053004500 Mg binding site [ion binding]; other site 1366053004501 putative protofilament interaction site [polypeptide binding]; other site 1366053004502 RodZ interaction site [polypeptide binding]; other site 1366053004503 Lysine efflux permease [General function prediction only]; Region: COG1279 1366053004504 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1366053004505 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1366053004506 Sugar specificity; other site 1366053004507 Pyrimidine base specificity; other site 1366053004508 ATP-binding site [chemical binding]; other site 1366053004509 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1366053004510 trimer interface [polypeptide binding]; other site 1366053004511 active site 1366053004512 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1366053004513 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1366053004514 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1366053004515 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1366053004516 DNA binding site [nucleotide binding] 1366053004517 domain linker motif; other site 1366053004518 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1366053004519 dimerization interface [polypeptide binding]; other site 1366053004520 ligand binding site [chemical binding]; other site 1366053004521 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 1366053004522 S-adenosylmethionine binding site [chemical binding]; other site 1366053004523 acyl-CoA esterase; Provisional; Region: PRK10673 1366053004524 PGAP1-like protein; Region: PGAP1; pfam07819 1366053004525 SeqA protein; Region: SeqA; pfam03925 1366053004526 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1366053004527 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1366053004528 acyl-activating enzyme (AAE) consensus motif; other site 1366053004529 putative AMP binding site [chemical binding]; other site 1366053004530 putative active site [active] 1366053004531 putative CoA binding site [chemical binding]; other site 1366053004532 hypothetical protein; Provisional; Region: PRK11281 1366053004533 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1366053004534 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1366053004535 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1366053004536 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1366053004537 Tetramer interface [polypeptide binding]; other site 1366053004538 active site 1366053004539 FMN-binding site [chemical binding]; other site 1366053004540 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1366053004541 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1366053004542 DNA topoisomerase III; Provisional; Region: PRK07726 1366053004543 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1366053004544 active site 1366053004545 putative interdomain interaction site [polypeptide binding]; other site 1366053004546 putative metal-binding site [ion binding]; other site 1366053004547 putative nucleotide binding site [chemical binding]; other site 1366053004548 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 1366053004549 domain I; other site 1366053004550 DNA binding groove [nucleotide binding] 1366053004551 phosphate binding site [ion binding]; other site 1366053004552 domain II; other site 1366053004553 domain III; other site 1366053004554 nucleotide binding site [chemical binding]; other site 1366053004555 catalytic site [active] 1366053004556 domain IV; other site 1366053004557 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1366053004558 integrase; Provisional; Region: PRK09692 1366053004559 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1366053004560 active site 1366053004561 Int/Topo IB signature motif; other site 1366053004562 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1366053004563 Phage capsid family; Region: Phage_capsid; pfam05065 1366053004564 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1366053004565 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1366053004566 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1366053004567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1366053004568 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1366053004569 Probable transposase; Region: OrfB_IS605; pfam01385 1366053004570 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1366053004571 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1366053004572 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 1366053004573 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1366053004574 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 1366053004575 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1366053004576 uncharacterized domain; Region: TIGR00702 1366053004577 YcaO-like family; Region: YcaO; pfam02624 1366053004578 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1366053004579 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 1366053004580 S-adenosylmethionine binding site [chemical binding]; other site 1366053004581 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1366053004582 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 1366053004583 Mg2+ binding site [ion binding]; other site 1366053004584 G-X-G motif; other site 1366053004585 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 1366053004586 anchoring element; other site 1366053004587 dimer interface [polypeptide binding]; other site 1366053004588 ATP binding site [chemical binding]; other site 1366053004589 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 1366053004590 active site 1366053004591 putative metal-binding site [ion binding]; other site 1366053004592 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1366053004593 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1366053004594 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 1366053004595 ATP binding site [chemical binding]; other site 1366053004596 putative Mg++ binding site [ion binding]; other site 1366053004597 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1366053004598 DNA methylase; Region: N6_N4_Mtase; pfam01555 1366053004599 DNA methylase; Region: N6_N4_Mtase; cl17433 1366053004600 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1366053004601 UbiA prenyltransferase family; Region: UbiA; pfam01040 1366053004602 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1366053004603 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1366053004604 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1366053004605 adenylosuccinate lyase; Provisional; Region: PRK09285 1366053004606 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1366053004607 tetramer interface [polypeptide binding]; other site 1366053004608 active site 1366053004609 putative lysogenization regulator; Reviewed; Region: PRK00218 1366053004610 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1366053004611 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1366053004612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053004613 Walker A/P-loop; other site 1366053004614 ATP binding site [chemical binding]; other site 1366053004615 Q-loop/lid; other site 1366053004616 ABC transporter signature motif; other site 1366053004617 Walker B; other site 1366053004618 D-loop; other site 1366053004619 H-loop/switch region; other site 1366053004620 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1366053004621 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1366053004622 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053004623 Walker A/P-loop; other site 1366053004624 ATP binding site [chemical binding]; other site 1366053004625 Q-loop/lid; other site 1366053004626 ABC transporter signature motif; other site 1366053004627 Walker B; other site 1366053004628 D-loop; other site 1366053004629 H-loop/switch region; other site 1366053004630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1366053004631 Family of unknown function (DUF490); Region: DUF490; pfam04357 1366053004632 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1366053004633 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1366053004634 Surface antigen; Region: Bac_surface_Ag; pfam01103 1366053004635 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1366053004636 NodB motif; other site 1366053004637 putative active site [active] 1366053004638 putative catalytic site [active] 1366053004639 Zn binding site [ion binding]; other site 1366053004640 AmiB activator; Provisional; Region: PRK11637 1366053004641 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; cl00240 1366053004642 Peptidase family M23; Region: Peptidase_M23; pfam01551 1366053004643 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 1366053004644 catalytic core [active] 1366053004645 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 1366053004646 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1366053004647 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 1366053004648 hinge region; other site 1366053004649 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 1366053004650 putative nucleotide binding site [chemical binding]; other site 1366053004651 uridine monophosphate binding site [chemical binding]; other site 1366053004652 homohexameric interface [polypeptide binding]; other site 1366053004653 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1366053004654 Sulfatase; Region: Sulfatase; cl17466 1366053004655 elongation factor Ts; Provisional; Region: tsf; PRK09377 1366053004656 UBA/TS-N domain; Region: UBA; pfam00627 1366053004657 Elongation factor TS; Region: EF_TS; pfam00889 1366053004658 Elongation factor TS; Region: EF_TS; pfam00889 1366053004659 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 1366053004660 rRNA interaction site [nucleotide binding]; other site 1366053004661 S8 interaction site; other site 1366053004662 putative laminin-1 binding site; other site 1366053004663 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1366053004664 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1366053004665 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1366053004666 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 1366053004667 dimer interface [polypeptide binding]; other site 1366053004668 conserved gate region; other site 1366053004669 putative PBP binding loops; other site 1366053004670 ABC-ATPase subunit interface; other site 1366053004671 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 1366053004672 dimer interface [polypeptide binding]; other site 1366053004673 conserved gate region; other site 1366053004674 putative PBP binding loops; other site 1366053004675 ABC-ATPase subunit interface; other site 1366053004676 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1366053004677 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1366053004678 Walker A/P-loop; other site 1366053004679 ATP binding site [chemical binding]; other site 1366053004680 Q-loop/lid; other site 1366053004681 ABC transporter signature motif; other site 1366053004682 Walker B; other site 1366053004683 D-loop; other site 1366053004684 H-loop/switch region; other site 1366053004685 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1366053004686 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 1366053004687 catalytic residues [active] 1366053004688 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1366053004689 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1366053004690 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1366053004691 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 1366053004692 ATP binding site [chemical binding]; other site 1366053004693 Mg++ binding site [ion binding]; other site 1366053004694 motif III; other site 1366053004695 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 1366053004696 nucleotide binding region [chemical binding]; other site 1366053004697 ATP-binding site [chemical binding]; other site 1366053004698 Recombination protein O N terminal; Region: RecO_N; pfam11967 1366053004699 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1366053004700 Recombination protein O C terminal; Region: RecO_C; pfam02565 1366053004701 GTPase Era; Reviewed; Region: era; PRK00089 1366053004702 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1366053004703 G1 box; other site 1366053004704 GTP/Mg2+ binding site [chemical binding]; other site 1366053004705 Switch I region; other site 1366053004706 G2 box; other site 1366053004707 Switch II region; other site 1366053004708 G3 box; other site 1366053004709 G4 box; other site 1366053004710 G5 box; other site 1366053004711 KH domain; Region: KH_2; pfam07650 1366053004712 ribonuclease III; Reviewed; Region: rnc; PRK00102 1366053004713 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 1366053004714 dimerization interface [polypeptide binding]; other site 1366053004715 active site 1366053004716 metal binding site [ion binding]; metal-binding site 1366053004717 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 1366053004718 dsRNA binding site [nucleotide binding]; other site 1366053004719 signal peptidase I; Provisional; Region: PRK10861 1366053004720 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 1366053004721 Catalytic site [active] 1366053004722 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 1366053004723 GTP-binding protein LepA; Provisional; Region: PRK05433 1366053004724 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1366053004725 G1 box; other site 1366053004726 putative GEF interaction site [polypeptide binding]; other site 1366053004727 GTP/Mg2+ binding site [chemical binding]; other site 1366053004728 Switch I region; other site 1366053004729 G2 box; other site 1366053004730 G3 box; other site 1366053004731 Switch II region; other site 1366053004732 G4 box; other site 1366053004733 G5 box; other site 1366053004734 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 1366053004735 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 1366053004736 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1366053004737 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1366053004738 homodimer interface [polypeptide binding]; other site 1366053004739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053004740 catalytic residue [active] 1366053004741 Hep_Hag; Region: Hep_Hag; pfam05658 1366053004742 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1366053004743 trimer interface [polypeptide binding]; other site 1366053004744 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053004745 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053004746 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053004747 Integrase core domain; Region: rve; pfam00665 1366053004748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053004749 Integrase core domain; Region: rve_3; pfam13683 1366053004750 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053004751 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053004752 Integrase core domain; Region: rve; pfam00665 1366053004753 Predicted membrane protein [Function unknown]; Region: COG2259 1366053004754 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 1366053004755 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1366053004756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1366053004757 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1366053004758 RNA polymerase sigma factor; Provisional; Region: PRK12530 1366053004759 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 1366053004760 DNA binding residues [nucleotide binding] 1366053004761 Putative zinc-finger; Region: zf-HC2; pfam13490 1366053004762 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1366053004763 Na binding site [ion binding]; other site 1366053004764 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1366053004765 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1366053004766 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1366053004767 OstA-like protein; Region: OstA; pfam03968 1366053004768 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1366053004769 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1366053004770 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 1366053004771 FeS/SAM binding site; other site 1366053004772 HemN C-terminal domain; Region: HemN_C; pfam06969 1366053004773 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1366053004774 Der GTPase activator; Provisional; Region: PRK05244 1366053004775 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 1366053004776 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1366053004777 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1366053004778 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 1366053004779 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053004780 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1366053004781 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053004782 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1366053004783 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1366053004784 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 1366053004785 ATP binding site [chemical binding]; other site 1366053004786 putative Mg++ binding site [ion binding]; other site 1366053004787 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1366053004788 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1366053004789 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1366053004790 metal binding triad; other site 1366053004791 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1366053004792 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1366053004793 metal binding triad; other site 1366053004794 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1366053004795 YciI-like protein; Reviewed; Region: PRK11370 1366053004796 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 1366053004797 intracellular septation protein A; Reviewed; Region: PRK00259 1366053004798 Protein of unknown function, DUF412; Region: DUF412; cl01183 1366053004799 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1366053004800 Predicted transcriptional regulator [Transcription]; Region: COG2932 1366053004801 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 1366053004802 Catalytic site [active] 1366053004803 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1366053004804 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1366053004805 Integrase core domain; Region: rve; pfam00665 1366053004806 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1366053004807 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1366053004808 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1366053004809 DNA binding site [nucleotide binding] 1366053004810 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 1366053004811 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1366053004812 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 1366053004813 non-specific DNA binding site [nucleotide binding]; other site 1366053004814 salt bridge; other site 1366053004815 sequence-specific DNA binding site [nucleotide binding]; other site 1366053004816 Mor transcription activator family; Region: Mor; cl02360 1366053004817 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1366053004818 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1366053004819 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1366053004820 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1366053004821 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1366053004822 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 1366053004823 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1366053004824 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1366053004825 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1366053004826 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 1366053004827 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1366053004828 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 1366053004829 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1366053004830 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 1366053004831 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 1366053004832 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 1366053004833 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1366053004834 Phage tail tube protein; Region: Tail_tube; pfam10618 1366053004835 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1366053004836 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 1366053004837 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 1366053004838 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 1366053004839 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1366053004840 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 1366053004841 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1366053004842 Phage protein GP46; Region: GP46; cl01814 1366053004843 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1366053004844 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1366053004845 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1366053004846 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1366053004847 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1366053004848 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 1366053004849 ATP binding site [chemical binding]; other site 1366053004850 substrate interface [chemical binding]; other site 1366053004851 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1366053004852 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 1366053004853 dimer interface [polypeptide binding]; other site 1366053004854 putative functional site; other site 1366053004855 putative MPT binding site; other site 1366053004856 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1366053004857 AAA domain; Region: AAA_14; pfam13173 1366053004858 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1366053004859 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1366053004860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053004861 Walker A/P-loop; other site 1366053004862 ATP binding site [chemical binding]; other site 1366053004863 Q-loop/lid; other site 1366053004864 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1366053004865 ABC transporter signature motif; other site 1366053004866 Walker B; other site 1366053004867 D-loop; other site 1366053004868 ABC transporter; Region: ABC_tran_2; pfam12848 1366053004869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1366053004870 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1366053004871 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 1366053004872 putative C-terminal domain interface [polypeptide binding]; other site 1366053004873 putative GSH binding site (G-site) [chemical binding]; other site 1366053004874 putative dimer interface [polypeptide binding]; other site 1366053004875 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1366053004876 N-terminal domain interface [polypeptide binding]; other site 1366053004877 dimer interface [polypeptide binding]; other site 1366053004878 substrate binding pocket (H-site) [chemical binding]; other site 1366053004879 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1366053004880 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1366053004881 active site 1366053004882 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 1366053004883 catalytic core [active] 1366053004884 hypothetical protein; Provisional; Region: PRK05415 1366053004885 Domain of unknown function (DUF697); Region: DUF697; cl12064 1366053004886 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 1366053004887 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1366053004888 FMN binding site [chemical binding]; other site 1366053004889 active site 1366053004890 catalytic residues [active] 1366053004891 substrate binding site [chemical binding]; other site 1366053004892 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1366053004893 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1366053004894 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1366053004895 putative metal binding site [ion binding]; other site 1366053004896 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 1366053004897 HSP70 interaction site [polypeptide binding]; other site 1366053004898 EamA-like transporter family; Region: EamA; pfam00892 1366053004899 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1366053004900 ligand binding site [chemical binding]; other site 1366053004901 translocation protein TolB; Provisional; Region: tolB; PRK01742 1366053004902 TolB amino-terminal domain; Region: TolB_N; pfam04052 1366053004903 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1366053004904 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1366053004905 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1366053004906 TolA C-terminal; Region: TolA; pfam06519 1366053004907 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1366053004908 colicin uptake protein TolR; Provisional; Region: PRK11024 1366053004909 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1366053004910 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 1366053004911 active site 1366053004912 cyd operon protein YbgE; Region: cyd_oper_ybgE; TIGR02112 1366053004913 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1366053004914 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1366053004915 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1366053004916 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1366053004917 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1366053004918 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1366053004919 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 1366053004920 ring oligomerisation interface [polypeptide binding]; other site 1366053004921 ATP/Mg binding site [chemical binding]; other site 1366053004922 stacking interactions; other site 1366053004923 hinge regions; other site 1366053004924 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 1366053004925 oligomerisation interface [polypeptide binding]; other site 1366053004926 mobile loop; other site 1366053004927 roof hairpin; other site 1366053004928 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053004929 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053004930 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053004931 Integrase core domain; Region: rve; pfam00665 1366053004932 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053004933 Integrase core domain; Region: rve_3; pfam13683 1366053004934 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 1366053004935 active site 1366053004936 8-oxo-dGMP binding site [chemical binding]; other site 1366053004937 nudix motif; other site 1366053004938 metal binding site [ion binding]; metal-binding site 1366053004939 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1366053004940 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1366053004941 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; cl17351 1366053004942 nucleotide binding region [chemical binding]; other site 1366053004943 ATP-binding site [chemical binding]; other site 1366053004944 SEC-C motif; Region: SEC-C; pfam02810 1366053004945 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 1366053004946 Protein of unknown function (DUF721); Region: DUF721; cl02324 1366053004947 NlpE N-terminal domain; Region: NlpE; pfam04170 1366053004948 BolA-like protein; Region: BolA; cl00386 1366053004949 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1366053004950 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1366053004951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1366053004952 RNA methyltransferase, RsmE family; Region: TIGR00046 1366053004953 hypothetical protein; Validated; Region: PRK00228 1366053004954 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1366053004955 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1366053004956 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1366053004957 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1366053004958 amino acid carrier protein; Region: agcS; TIGR00835 1366053004959 Staphylococcal nuclease homologues; Region: SNc; smart00318 1366053004960 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1366053004961 Catalytic site; other site 1366053004962 Excalibur calcium-binding domain; Region: Excalibur; cl05460 1366053004963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053004964 Walker B; other site 1366053004965 D-loop; other site 1366053004966 H-loop/switch region; other site 1366053004967 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1366053004968 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1366053004969 Walker A/P-loop; other site 1366053004970 ATP binding site [chemical binding]; other site 1366053004971 Q-loop/lid; other site 1366053004972 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39C; cd02419 1366053004973 putative active site [active] 1366053004974 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1366053004975 HlyD family secretion protein; Region: HlyD_3; pfam13437 1366053004976 Cupin-like domain; Region: Cupin_8; pfam13621 1366053004977 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053004978 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1366053004979 Cupin superfamily protein; Region: Cupin_4; pfam08007 1366053004980 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1366053004981 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1366053004982 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 1366053004983 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1366053004984 catalytic residue [active] 1366053004985 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1366053004986 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1366053004987 active site 1366053004988 ADP/pyrophosphate binding site [chemical binding]; other site 1366053004989 dimerization interface [polypeptide binding]; other site 1366053004990 allosteric effector site; other site 1366053004991 fructose-1,6-bisphosphate binding site; other site 1366053004992 YwiC-like protein; Region: YwiC; pfam14256 1366053004993 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1366053004994 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1366053004995 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1366053004996 Ligand Binding Site [chemical binding]; other site 1366053004997 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1366053004998 active site residue [active] 1366053004999 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1366053005000 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1366053005001 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1366053005002 homodimer interface [polypeptide binding]; other site 1366053005003 NADP binding site [chemical binding]; other site 1366053005004 substrate binding site [chemical binding]; other site 1366053005005 Abi-like protein; Region: Abi_2; pfam07751 1366053005006 RNA polymerases N / 8 kDa subunit; Region: RNA_pol_N; cl00712 1366053005007 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 1366053005008 non-specific DNA binding site [nucleotide binding]; other site 1366053005009 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1366053005010 salt bridge; other site 1366053005011 sequence-specific DNA binding site [nucleotide binding]; other site 1366053005012 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 1366053005013 Catalytic site [active] 1366053005014 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 1366053005015 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1366053005016 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1366053005017 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 1366053005018 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1366053005019 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053005020 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053005021 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053005022 integrase; Provisional; Region: int; PHA02601 1366053005023 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 1366053005024 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1366053005025 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1366053005026 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1366053005027 RelB antitoxin; Region: RelB; cl01171 1366053005028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1366053005029 tape measure domain; Region: tape_meas_nterm; TIGR02675 1366053005030 NlpC/P60 family; Region: NLPC_P60; cl17555 1366053005031 Phage-related protein, tail component [Function unknown]; Region: COG4723 1366053005032 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 1366053005033 non-specific DNA binding site [nucleotide binding]; other site 1366053005034 salt bridge; other site 1366053005035 sequence-specific DNA binding site [nucleotide binding]; other site 1366053005036 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1366053005037 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1366053005038 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 1366053005039 GDP-binding site [chemical binding]; other site 1366053005040 ACT binding site; other site 1366053005041 IMP binding site; other site 1366053005042 FtsH protease regulator HflC; Provisional; Region: PRK11029 1366053005043 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 1366053005044 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1366053005045 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 1366053005046 HflK protein; Region: hflK; TIGR01933 1366053005047 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 1366053005048 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1366053005049 catalytic residues [active] 1366053005050 OmpW family; Region: OmpW; cl17427 1366053005051 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1366053005052 Clp amino terminal domain; Region: Clp_N; pfam02861 1366053005053 Clp amino terminal domain; Region: Clp_N; pfam02861 1366053005054 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 1366053005055 Walker A motif; other site 1366053005056 ATP binding site [chemical binding]; other site 1366053005057 Walker B motif; other site 1366053005058 arginine finger; other site 1366053005059 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 1366053005060 Walker A motif; other site 1366053005061 ATP binding site [chemical binding]; other site 1366053005062 Walker B motif; other site 1366053005063 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1366053005064 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1366053005065 substrate binding site [chemical binding]; other site 1366053005066 THF binding site; other site 1366053005067 zinc-binding site [ion binding]; other site 1366053005068 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1366053005069 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1366053005070 transmembrane helices; other site 1366053005071 cytidine deaminase; Provisional; Region: PRK09027 1366053005072 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 1366053005073 active site 1366053005074 catalytic motif [active] 1366053005075 Zn binding site [ion binding]; other site 1366053005076 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 1366053005077 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1366053005078 EamA-like transporter family; Region: EamA; pfam00892 1366053005079 EamA-like transporter family; Region: EamA; pfam00892 1366053005080 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 1366053005081 homooctamer interface [polypeptide binding]; other site 1366053005082 active site 1366053005083 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1366053005084 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1366053005085 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 1366053005086 ATP binding site [chemical binding]; other site 1366053005087 Mg2+ binding site [ion binding]; other site 1366053005088 G-X-G motif; other site 1366053005089 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 1366053005090 anchoring element; other site 1366053005091 dimer interface [polypeptide binding]; other site 1366053005092 ATP binding site [chemical binding]; other site 1366053005093 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 1366053005094 active site 1366053005095 putative metal-binding site [ion binding]; other site 1366053005096 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1366053005097 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1366053005098 HicB family; Region: HicB; pfam05534 1366053005099 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1366053005100 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1366053005101 DNA binding residues [nucleotide binding] 1366053005102 dimer interface [polypeptide binding]; other site 1366053005103 copper binding site [ion binding]; other site 1366053005104 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 1366053005105 metal-binding site [ion binding] 1366053005106 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1366053005107 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 1366053005108 metal-binding site [ion binding] 1366053005109 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1366053005110 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 1366053005111 motif II; other site 1366053005112 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1366053005113 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1366053005114 dimerization interface 3.5A [polypeptide binding]; other site 1366053005115 active site 1366053005116 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1366053005117 homodecamer interface [polypeptide binding]; other site 1366053005118 active site 1366053005119 putative catalytic site residues [active] 1366053005120 zinc binding site [ion binding]; other site 1366053005121 GTP-CH-I/GFRP interaction surface; other site 1366053005122 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1366053005123 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1366053005124 antiporter inner membrane protein; Provisional; Region: PRK11670 1366053005125 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 1366053005126 Walker A motif; other site 1366053005127 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1366053005128 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1366053005129 peptide binding site [polypeptide binding]; other site 1366053005130 hypothetical protein; Provisional; Region: PRK11111 1366053005131 periplasmic folding chaperone; Provisional; Region: PRK10788 1366053005132 SurA N-terminal domain; Region: SurA_N_3; cl07813 1366053005133 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1366053005134 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 1366053005135 16S/18S rRNA binding site [nucleotide binding]; other site 1366053005136 S13e-L30e interaction site [polypeptide binding]; other site 1366053005137 25S rRNA binding site [nucleotide binding]; other site 1366053005138 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1366053005139 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1366053005140 HemY protein N-terminus; Region: HemY_N; pfam07219 1366053005141 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 1366053005142 TPR motif; other site 1366053005143 binding surface 1366053005144 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1366053005145 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1366053005146 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 1366053005147 active site 1366053005148 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1366053005149 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; cd00494 1366053005150 domain interfaces; other site 1366053005151 active site 1366053005152 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1366053005153 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1366053005154 putative catalytic cysteine [active] 1366053005155 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1366053005156 putative active site [active] 1366053005157 metal binding site [ion binding]; metal-binding site 1366053005158 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1366053005159 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1366053005160 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1366053005161 Spore germination protein; Region: Spore_permease; cl17796 1366053005162 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1366053005163 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 1366053005164 active site 1366053005165 metal binding site [ion binding]; metal-binding site 1366053005166 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1366053005167 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1366053005168 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1366053005169 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1366053005170 catalytic site [active] 1366053005171 putative active site [active] 1366053005172 putative substrate binding site [chemical binding]; other site 1366053005173 dimer interface [polypeptide binding]; other site 1366053005174 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1366053005175 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1366053005176 active site 1366053005177 (T/H)XGH motif; other site 1366053005178 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1366053005179 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1366053005180 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 1366053005181 putative protease; Provisional; Region: PRK15452 1366053005182 Peptidase family U32; Region: Peptidase_U32; pfam01136 1366053005183 Cytochrome b562; Region: Cytochrom_B562; pfam07361 1366053005184 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1366053005185 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1366053005186 putative active site [active] 1366053005187 putative PHP Thumb interface [polypeptide binding]; other site 1366053005188 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 1366053005189 generic binding surface II; other site 1366053005190 generic binding surface I; other site 1366053005191 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1366053005192 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1366053005193 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1366053005194 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1366053005195 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1366053005196 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 1366053005197 interface (dimer of trimers) [polypeptide binding]; other site 1366053005198 Substrate-binding/catalytic site; other site 1366053005199 Zn-binding sites [ion binding]; other site 1366053005200 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1366053005201 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 1366053005202 dimer interface [polypeptide binding]; other site 1366053005203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053005204 catalytic residue [active] 1366053005205 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1366053005206 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1366053005207 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 1366053005208 RNA binding site [nucleotide binding]; other site 1366053005209 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 1366053005210 multimer interface [polypeptide binding]; other site 1366053005211 Walker A motif; other site 1366053005212 ATP binding site [chemical binding]; other site 1366053005213 Walker B motif; other site 1366053005214 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1366053005215 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 1366053005216 putative active site [active] 1366053005217 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 1366053005218 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 1366053005219 putative active site [active] 1366053005220 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 1366053005221 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1366053005222 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1366053005223 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 1366053005224 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1366053005225 catalytic core [active] 1366053005226 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1366053005227 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1366053005228 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1366053005229 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1366053005230 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1366053005231 PTS_IIB, PTS system, Mannose/sorbose specific IIB 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_IIB_man; cd00001 1366053005232 active site 1366053005233 phosphorylation site [posttranslational modification] 1366053005234 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 1366053005235 active pocket/dimerization site; other site 1366053005236 active site 1366053005237 phosphorylation site [posttranslational modification] 1366053005238 acetylornithine aminotransferase; Provisional; Region: PRK02627 1366053005239 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 1366053005240 inhibitor-cofactor binding pocket; inhibition site 1366053005241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053005242 catalytic residue [active] 1366053005243 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 1366053005244 nucleotide binding site [chemical binding]; other site 1366053005245 homohexameric interface [polypeptide binding]; other site 1366053005246 N-acetyl-L-glutamate binding site [chemical binding]; other site 1366053005247 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1366053005248 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1366053005249 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1366053005250 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 1366053005251 putative C-terminal domain interface [polypeptide binding]; other site 1366053005252 putative GSH binding site (G-site) [chemical binding]; other site 1366053005253 putative dimer interface [polypeptide binding]; other site 1366053005254 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1366053005255 N-terminal domain interface [polypeptide binding]; other site 1366053005256 dimer interface [polypeptide binding]; other site 1366053005257 substrate binding pocket (H-site) [chemical binding]; other site 1366053005258 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1366053005259 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1366053005260 putative active site [active] 1366053005261 putative FMN binding site [chemical binding]; other site 1366053005262 putative substrate binding site [chemical binding]; other site 1366053005263 putative catalytic residue [active] 1366053005264 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1366053005265 putative FMN binding site [chemical binding]; other site 1366053005266 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1366053005267 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1366053005268 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1366053005269 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1366053005270 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053005271 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1366053005272 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1366053005273 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1366053005274 intersubunit interface [polypeptide binding]; other site 1366053005275 active site 1366053005276 catalytic residue [active] 1366053005277 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1366053005278 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1366053005279 Nucleoside recognition; Region: Gate; pfam07670 1366053005280 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1366053005281 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1366053005282 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1366053005283 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 1366053005284 active site 1366053005285 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1366053005286 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 1366053005287 active site 1366053005288 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 1366053005289 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 1366053005290 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1366053005291 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1366053005292 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1366053005293 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1366053005294 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1366053005295 active site 1366053005296 homodimer interface [polypeptide binding]; other site 1366053005297 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1366053005298 ligand binding site; other site 1366053005299 tetramer interface; other site 1366053005300 SGNH_hydrolase, or GDSL_hydrolase, is 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 hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1366053005301 active site 1366053005302 catalytic triad [active] 1366053005303 oxyanion hole [active] 1366053005304 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1366053005305 NeuB family; Region: NeuB; pfam03102 1366053005306 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1366053005307 NeuB binding interface [polypeptide binding]; other site 1366053005308 putative substrate binding site [chemical binding]; other site 1366053005309 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1366053005310 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1366053005311 putative trimer interface [polypeptide binding]; other site 1366053005312 putative CoA binding site [chemical binding]; other site 1366053005313 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1366053005314 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 1366053005315 putative active site [active] 1366053005316 primosome assembly protein PriA; Validated; Region: PRK05580 1366053005317 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 1366053005318 ATP binding site [chemical binding]; other site 1366053005319 putative Mg++ binding site [ion binding]; other site 1366053005320 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1366053005321 nucleotide binding region [chemical binding]; other site 1366053005322 ATP-binding site [chemical binding]; other site 1366053005323 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1366053005324 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1366053005325 EamA-like transporter family; Region: EamA; pfam00892 1366053005326 aminotransferase AlaT; Validated; Region: PRK09265 1366053005327 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 1366053005328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053005329 homodimer interface [polypeptide binding]; other site 1366053005330 catalytic residue [active] 1366053005331 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1366053005332 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1366053005333 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1366053005334 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053005335 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053005336 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053005337 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053005338 Integrase core domain; Region: rve; pfam00665 1366053005339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053005340 Integrase core domain; Region: rve_3; pfam13683 1366053005341 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1366053005342 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 1366053005343 FeS/SAM binding site; other site 1366053005344 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1366053005345 active site 1366053005346 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 1366053005347 Ligand Binding Site [chemical binding]; other site 1366053005348 Membrane fusogenic activity; Region: BMFP; cl01115 1366053005349 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1366053005350 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 1366053005351 active site 1366053005352 dimer interface [polypeptide binding]; other site 1366053005353 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 1366053005354 dimer interface [polypeptide binding]; other site 1366053005355 active site 1366053005356 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1366053005357 AAA domain; Region: AAA_30; pfam13604 1366053005358 Family description; Region: UvrD_C_2; pfam13538 1366053005359 alanine racemase; Reviewed; Region: alr; PRK00053 1366053005360 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1366053005361 active site 1366053005362 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1366053005363 substrate binding site [chemical binding]; other site 1366053005364 catalytic residues [active] 1366053005365 dimer interface [polypeptide binding]; other site 1366053005366 superoxide dismutase; Provisional; Region: PRK10925 1366053005367 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1366053005368 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1366053005369 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1366053005370 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1366053005371 putative catalytic residues [active] 1366053005372 putative nucleotide binding site [chemical binding]; other site 1366053005373 putative aspartate binding site [chemical binding]; other site 1366053005374 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1366053005375 dimer interface [polypeptide binding]; other site 1366053005376 putative threonine allosteric regulatory site; other site 1366053005377 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1366053005378 putative threonine allosteric regulatory site; other site 1366053005379 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1366053005380 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1366053005381 homoserine kinase; Provisional; Region: PRK01212 1366053005382 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1366053005383 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1366053005384 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1366053005385 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1366053005386 active site 1366053005387 HIGH motif; other site 1366053005388 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1366053005389 KMSKS motif; other site 1366053005390 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1366053005391 tRNA binding surface [nucleotide binding]; other site 1366053005392 anticodon binding site; other site 1366053005393 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1366053005394 substrate binding site [chemical binding]; other site 1366053005395 Membrane transport protein; Region: Mem_trans; cl09117 1366053005396 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1366053005397 Molybdopterin-Binding (MopB) 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- and...; Region: Molybdopterin-Binding; cl09928 1366053005398 Molybdopterin-Binding (MopB) 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- and...; Region: Molybdopterin-Binding; cl09928 1366053005399 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1366053005400 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1366053005401 molybdopterin cofactor binding site; other site 1366053005402 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1366053005403 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 1366053005404 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1366053005405 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1366053005406 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1366053005407 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1366053005408 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1366053005409 glutathione reductase; Validated; Region: PRK06116 1366053005410 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1366053005411 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1366053005412 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1366053005413 hypothetical protein; Provisional; Region: PRK05208 1366053005414 Nitroreductase-like family 1. 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_1; cd02137 1366053005415 dimer interface [polypeptide binding]; other site 1366053005416 FMN binding site [chemical binding]; other site 1366053005417 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1366053005418 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053005419 Walker A/P-loop; other site 1366053005420 ATP binding site [chemical binding]; other site 1366053005421 Q-loop/lid; other site 1366053005422 ABC transporter signature motif; other site 1366053005423 Walker B; other site 1366053005424 D-loop; other site 1366053005425 H-loop/switch region; other site 1366053005426 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1366053005427 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1366053005428 active site 1366053005429 intersubunit interface [polypeptide binding]; other site 1366053005430 zinc binding site [ion binding]; other site 1366053005431 Na+ binding site [ion binding]; other site 1366053005432 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 1366053005433 Phosphoglycerate kinase; Region: PGK; pfam00162 1366053005434 substrate binding site [chemical binding]; other site 1366053005435 hinge regions; other site 1366053005436 ADP binding site [chemical binding]; other site 1366053005437 catalytic site [active] 1366053005438 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1366053005439 Na2 binding site [ion binding]; other site 1366053005440 putative substrate binding site 1 [chemical binding]; other site 1366053005441 Na binding site 1 [ion binding]; other site 1366053005442 putative substrate binding site 2 [chemical binding]; other site 1366053005443 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1366053005444 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1366053005445 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1366053005446 active site 1366053005447 dimer interface [polypeptide binding]; other site 1366053005448 metal binding site [ion binding]; metal-binding site 1366053005449 shikimate kinase; Reviewed; Region: aroK; PRK00131 1366053005450 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 1366053005451 ADP binding site [chemical binding]; other site 1366053005452 magnesium binding site [ion binding]; other site 1366053005453 putative shikimate binding site; other site 1366053005454 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1366053005455 Transglycosylase; Region: Transgly; pfam00912 1366053005456 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1366053005457 Competence protein A; Region: Competence_A; pfam11104 1366053005458 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1366053005459 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1366053005460 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1366053005461 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1366053005462 putative RNA binding site [nucleotide binding]; other site 1366053005463 thiamine monophosphate kinase; Provisional; Region: PRK05731 1366053005464 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1366053005465 ATP binding site [chemical binding]; other site 1366053005466 dimerization interface [polypeptide binding]; other site 1366053005467 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1366053005468 tetramer interfaces [polypeptide binding]; other site 1366053005469 binuclear metal-binding site [ion binding]; other site 1366053005470 LysE type translocator; Region: LysE; cl00565 1366053005471 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1366053005472 RuvA N terminal domain; Region: RuvA_N; pfam01330 1366053005473 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1366053005474 helix-hairpin-helix signature motif; other site 1366053005475 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1366053005476 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1366053005477 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 1366053005478 Walker A motif; other site 1366053005479 ATP binding site [chemical binding]; other site 1366053005480 Walker B motif; other site 1366053005481 arginine finger; other site 1366053005482 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1366053005483 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 1366053005484 dimer interface [polypeptide binding]; other site 1366053005485 conserved gate region; other site 1366053005486 putative PBP binding loops; other site 1366053005487 ABC-ATPase subunit interface; other site 1366053005488 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1366053005489 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 1366053005490 dimer interface [polypeptide binding]; other site 1366053005491 conserved gate region; other site 1366053005492 putative PBP binding loops; other site 1366053005493 ABC-ATPase subunit interface; other site 1366053005494 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1366053005495 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 1366053005496 substrate binding pocket [chemical binding]; other site 1366053005497 membrane-bound complex binding site; other site 1366053005498 hinge residues; other site 1366053005499 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1366053005500 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1366053005501 Walker A/P-loop; other site 1366053005502 ATP binding site [chemical binding]; other site 1366053005503 Q-loop/lid; other site 1366053005504 ABC transporter signature motif; other site 1366053005505 Walker B; other site 1366053005506 D-loop; other site 1366053005507 H-loop/switch region; other site 1366053005508 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1366053005509 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1366053005510 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1366053005511 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1366053005512 DsbD alpha interface [polypeptide binding]; other site 1366053005513 catalytic residues [active] 1366053005514 Protein of unknown function, DUF462; Region: DUF462; cl01190 1366053005515 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1366053005516 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1366053005517 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1366053005518 acyl-activating enzyme (AAE) consensus motif; other site 1366053005519 putative AMP binding site [chemical binding]; other site 1366053005520 putative active site [active] 1366053005521 putative CoA binding site [chemical binding]; other site 1366053005522 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 1366053005523 homotrimer interaction site [polypeptide binding]; other site 1366053005524 putative active site [active] 1366053005525 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1366053005526 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 1366053005527 homodimer interface [polypeptide binding]; other site 1366053005528 substrate-cofactor binding pocket; other site 1366053005529 catalytic residue [active] 1366053005530 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 1366053005531 putative GSH binding site [chemical binding]; other site 1366053005532 catalytic residues [active] 1366053005533 recombination protein RecR; Reviewed; Region: recR; PRK00076 1366053005534 RecR protein; Region: RecR; pfam02132 1366053005535 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 1366053005536 putative active site [active] 1366053005537 putative metal-binding site [ion binding]; other site 1366053005538 tetramer interface [polypeptide binding]; other site 1366053005539 hypothetical protein; Validated; Region: PRK00153 1366053005540 recF protein; Region: recf; TIGR00611 1366053005541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053005542 Walker A/P-loop; other site 1366053005543 ATP binding site [chemical binding]; other site 1366053005544 Q-loop/lid; other site 1366053005545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053005546 ABC transporter signature motif; other site 1366053005547 Walker B; other site 1366053005548 D-loop; other site 1366053005549 H-loop/switch region; other site 1366053005550 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1366053005551 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 1366053005552 arogenate dehydrogenase; Region: PLN02256 1366053005553 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1366053005554 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1366053005555 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1366053005556 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1366053005557 putative active site [active] 1366053005558 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 1366053005559 pyruvate kinase; Provisional; Region: PRK05826 1366053005560 active site 1366053005561 domain interfaces; other site 1366053005562 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 1366053005563 catalytic core [active] 1366053005564 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1366053005565 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 1366053005566 FMN binding site [chemical binding]; other site 1366053005567 active site 1366053005568 catalytic residues [active] 1366053005569 substrate binding site [chemical binding]; other site 1366053005570 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1366053005571 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1366053005572 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 1366053005573 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 1366053005574 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 1366053005575 ligand-binding site [chemical binding]; other site 1366053005576 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1366053005577 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1366053005578 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1366053005579 dimer interface [polypeptide binding]; other site 1366053005580 catalytic site [active] 1366053005581 putative active site [active] 1366053005582 putative substrate binding site [chemical binding]; other site 1366053005583 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1366053005584 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1366053005585 dimer interface [polypeptide binding]; other site 1366053005586 active site 1366053005587 metal binding site [ion binding]; metal-binding site 1366053005588 glutathione binding site [chemical binding]; other site 1366053005589 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1366053005590 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1366053005591 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1366053005592 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 1366053005593 catalytic center binding site [active] 1366053005594 ATP binding site [chemical binding]; other site 1366053005595 poly(A) polymerase; Region: pcnB; TIGR01942 1366053005596 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1366053005597 active site 1366053005598 NTP binding site [chemical binding]; other site 1366053005599 metal binding triad [ion binding]; metal-binding site 1366053005600 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1366053005601 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1366053005602 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1366053005603 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1366053005604 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1366053005605 hypothetical protein; Validated; Region: PRK06886 1366053005606 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 1366053005607 active site 1366053005608 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1366053005609 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1366053005610 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1366053005611 Ligand binding site; other site 1366053005612 oligomer interface; other site 1366053005613 thioredoxin reductase; Provisional; Region: PRK10262 1366053005614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1366053005615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1366053005616 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 1366053005617 Dak1 domain; Region: Dak1; pfam02733 1366053005618 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 1366053005619 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1366053005620 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1366053005621 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 1366053005622 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1366053005623 active site residue [active] 1366053005624 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1366053005625 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1366053005626 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1366053005627 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1366053005628 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1366053005629 cell division protein ZipA; Provisional; Region: PRK01741 1366053005630 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1366053005631 FtsZ protein binding site [polypeptide binding]; other site 1366053005632 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1366053005633 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 1366053005634 nucleotide binding pocket [chemical binding]; other site 1366053005635 K-X-D-G motif; other site 1366053005636 catalytic site [active] 1366053005637 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1366053005638 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1366053005639 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 1366053005640 Dimer interface [polypeptide binding]; other site 1366053005641 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1366053005642 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 1366053005643 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1366053005644 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 1366053005645 dimer interface [polypeptide binding]; other site 1366053005646 active site 1366053005647 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1366053005648 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1366053005649 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1366053005650 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1366053005651 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1366053005652 TrkA-N domain; Region: TrkA_N; pfam02254 1366053005653 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1366053005654 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1366053005655 trimer interface; other site 1366053005656 sugar binding site [chemical binding]; other site 1366053005657 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1366053005658 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1366053005659 Walker A/P-loop; other site 1366053005660 ATP binding site [chemical binding]; other site 1366053005661 Q-loop/lid; other site 1366053005662 ABC transporter signature motif; other site 1366053005663 Walker B; other site 1366053005664 D-loop; other site 1366053005665 H-loop/switch region; other site 1366053005666 TOBE domain; Region: TOBE_2; pfam08402 1366053005667 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1366053005668 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1366053005669 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1366053005670 anticodon binding site; other site 1366053005671 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 1366053005672 dimer interface [polypeptide binding]; other site 1366053005673 conserved gate region; other site 1366053005674 putative PBP binding loops; other site 1366053005675 ABC-ATPase subunit interface; other site 1366053005676 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1366053005677 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 1366053005678 dimer interface [polypeptide binding]; other site 1366053005679 conserved gate region; other site 1366053005680 putative PBP binding loops; other site 1366053005681 ABC-ATPase subunit interface; other site 1366053005682 alpha-amylase; Reviewed; Region: malS; PRK09505 1366053005683 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1366053005684 active site 1366053005685 catalytic site [active] 1366053005686 transcriptional regulator MalT; Provisional; Region: PRK04841 1366053005687 AAA ATPase domain; Region: AAA_16; pfam13191 1366053005688 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 1366053005689 DNA binding residues [nucleotide binding] 1366053005690 dimerization interface [polypeptide binding]; other site 1366053005691 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 1366053005692 homodimer interface [polypeptide binding]; other site 1366053005693 maltodextrin phosphorylase; Provisional; Region: PRK14985 1366053005694 active site pocket [active] 1366053005695 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1366053005696 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1366053005697 putative transporter; Validated; Region: PRK03818 1366053005698 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1366053005699 TrkA-C domain; Region: TrkA_C; pfam02080 1366053005700 TrkA-C domain; Region: TrkA_C; pfam02080 1366053005701 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1366053005702 Predicted permease [General function prediction only]; Region: COG2056 1366053005703 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1366053005704 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1366053005705 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 1366053005706 putative catalytic site [active] 1366053005707 putative phosphate binding site [ion binding]; other site 1366053005708 active site 1366053005709 metal binding site A [ion binding]; metal-binding site 1366053005710 DNA binding site [nucleotide binding] 1366053005711 putative AP binding site [nucleotide binding]; other site 1366053005712 putative metal binding site B [ion binding]; other site 1366053005713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1366053005714 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1366053005715 OstA-like protein; Region: OstA; cl00844 1366053005716 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1366053005717 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1366053005718 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1366053005719 Walker A/P-loop; other site 1366053005720 ATP binding site [chemical binding]; other site 1366053005721 Q-loop/lid; other site 1366053005722 ABC transporter signature motif; other site 1366053005723 Walker B; other site 1366053005724 D-loop; other site 1366053005725 H-loop/switch region; other site 1366053005726 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 1366053005727 active site 1366053005728 phosphorylation site [posttranslational modification] 1366053005729 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1366053005730 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1366053005731 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1366053005732 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1366053005733 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1366053005734 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1366053005735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053005736 Walker A/P-loop; other site 1366053005737 ATP binding site [chemical binding]; other site 1366053005738 Q-loop/lid; other site 1366053005739 ABC transporter signature motif; other site 1366053005740 Walker B; other site 1366053005741 D-loop; other site 1366053005742 H-loop/switch region; other site 1366053005743 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1366053005744 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1366053005745 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 1366053005746 P loop; other site 1366053005747 GTP binding site [chemical binding]; other site 1366053005748 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1366053005749 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 1366053005750 S-adenosylmethionine binding site [chemical binding]; other site 1366053005751 dsDNA-mimic protein; Reviewed; Region: PRK05094 1366053005752 Flavin Reductases; Region: FlaRed; cl00801 1366053005753 tellurite resistance protein TehB; Provisional; Region: PRK12335 1366053005754 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1366053005755 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 1366053005756 S-adenosylmethionine binding site [chemical binding]; other site 1366053005757 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1366053005758 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 1366053005759 dimerization interface [polypeptide binding]; other site 1366053005760 putative ATP binding site [chemical binding]; other site 1366053005761 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1366053005762 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1366053005763 Aspartase; Region: Aspartase; cd01357 1366053005764 active sites [active] 1366053005765 tetramer interface [polypeptide binding]; other site 1366053005766 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1366053005767 Part of AAA domain; Region: AAA_19; pfam13245 1366053005768 Family description; Region: UvrD_C_2; pfam13538 1366053005769 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1366053005770 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1366053005771 Walker A/P-loop; other site 1366053005772 ATP binding site [chemical binding]; other site 1366053005773 Q-loop/lid; other site 1366053005774 ABC transporter signature motif; other site 1366053005775 Walker B; other site 1366053005776 D-loop; other site 1366053005777 H-loop/switch region; other site 1366053005778 TOBE domain; Region: TOBE_2; pfam08402 1366053005779 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 1366053005780 dimer interface [polypeptide binding]; other site 1366053005781 conserved gate region; other site 1366053005782 putative PBP binding loops; other site 1366053005783 ABC-ATPase subunit interface; other site 1366053005784 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1366053005785 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 1366053005786 dimer interface [polypeptide binding]; other site 1366053005787 conserved gate region; other site 1366053005788 putative PBP binding loops; other site 1366053005789 ABC-ATPase subunit interface; other site 1366053005790 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1366053005791 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 1366053005792 dimer interface [polypeptide binding]; other site 1366053005793 conserved gate region; other site 1366053005794 putative PBP binding loops; other site 1366053005795 ABC-ATPase subunit interface; other site 1366053005796 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1366053005797 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1366053005798 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 1366053005799 dimer interface [polypeptide binding]; other site 1366053005800 conserved gate region; other site 1366053005801 ABC-ATPase subunit interface; other site 1366053005802 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1366053005803 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053005804 Walker A/P-loop; other site 1366053005805 ATP binding site [chemical binding]; other site 1366053005806 Q-loop/lid; other site 1366053005807 ABC transporter signature motif; other site 1366053005808 Walker B; other site 1366053005809 D-loop; other site 1366053005810 H-loop/switch region; other site 1366053005811 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1366053005812 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053005813 Walker A/P-loop; other site 1366053005814 ATP binding site [chemical binding]; other site 1366053005815 Q-loop/lid; other site 1366053005816 ABC transporter signature motif; other site 1366053005817 Walker B; other site 1366053005818 D-loop; other site 1366053005819 H-loop/switch region; other site 1366053005820 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1366053005821 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1366053005822 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 1366053005823 N-terminal plug; other site 1366053005824 ligand-binding site [chemical binding]; other site 1366053005825 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1366053005826 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 1366053005827 intersubunit interface [polypeptide binding]; other site 1366053005828 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1366053005829 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 1366053005830 ABC-ATPase subunit interface; other site 1366053005831 dimer interface [polypeptide binding]; other site 1366053005832 putative PBP binding regions; other site 1366053005833 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 1366053005834 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1366053005835 Walker A/P-loop; other site 1366053005836 ATP binding site [chemical binding]; other site 1366053005837 Q-loop/lid; other site 1366053005838 ABC transporter signature motif; other site 1366053005839 Walker B; other site 1366053005840 D-loop; other site 1366053005841 H-loop/switch region; other site 1366053005842 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1366053005843 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1366053005844 active site 1366053005845 substrate binding site [chemical binding]; other site 1366053005846 cosubstrate binding site; other site 1366053005847 catalytic site [active] 1366053005848 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 1366053005849 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1366053005850 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1366053005851 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1366053005852 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 1366053005853 dimer interface [polypeptide binding]; other site 1366053005854 active site 1366053005855 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1366053005856 folate binding site [chemical binding]; other site 1366053005857 methionine synthase; Provisional; Region: PRK01207 1366053005858 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1366053005859 substrate binding site [chemical binding]; other site 1366053005860 THF binding site; other site 1366053005861 zinc-binding site [ion binding]; other site 1366053005862 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1366053005863 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1366053005864 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1366053005865 putative methyltransferase; Provisional; Region: PRK10864 1366053005866 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1366053005867 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1366053005868 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1366053005869 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 1366053005870 active site 1366053005871 dimerization interface [polypeptide binding]; other site 1366053005872 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1366053005873 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 1366053005874 TPP-binding site; other site 1366053005875 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 1366053005876 PYR/PP interface [polypeptide binding]; other site 1366053005877 dimer interface [polypeptide binding]; other site 1366053005878 TPP binding site [chemical binding]; other site 1366053005879 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1366053005880 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1366053005881 Carbon starvation protein CstA; Region: CstA; pfam02554 1366053005882 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1366053005883 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1366053005884 active site 1366053005885 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1366053005886 conserved cys residue [active] 1366053005887 BioY family; Region: BioY; pfam02632 1366053005888 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 1366053005889 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1366053005890 putative substrate translocation pore; other site 1366053005891 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1366053005892 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 1366053005893 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1366053005894 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 1366053005895 active site 1366053005896 dimer interface [polypeptide binding]; other site 1366053005897 motif 1; other site 1366053005898 motif 2; other site 1366053005899 motif 3; other site 1366053005900 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 1366053005901 anticodon binding site; other site 1366053005902 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1366053005903 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1366053005904 FtsX-like permease family; Region: FtsX; pfam02687 1366053005905 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1366053005906 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1366053005907 Walker A/P-loop; other site 1366053005908 ATP binding site [chemical binding]; other site 1366053005909 Q-loop/lid; other site 1366053005910 ABC transporter signature motif; other site 1366053005911 Walker B; other site 1366053005912 D-loop; other site 1366053005913 H-loop/switch region; other site 1366053005914 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1366053005915 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1366053005916 FtsX-like permease family; Region: FtsX; pfam02687 1366053005917 glycerate dehydrogenase; Provisional; Region: PRK06932 1366053005918 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1366053005919 putative ligand binding site [chemical binding]; other site 1366053005920 putative NAD binding site [chemical binding]; other site 1366053005921 catalytic site [active] 1366053005922 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1366053005923 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1366053005924 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1366053005925 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1366053005926 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 1366053005927 binding surface 1366053005928 TPR motif; other site 1366053005929 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1366053005930 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 1366053005931 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 1366053005932 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1366053005933 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1366053005934 RF-1 domain; Region: RF-1; pfam00472 1366053005935 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1366053005936 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1366053005937 glutamine binding [chemical binding]; other site 1366053005938 catalytic triad [active] 1366053005939 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1366053005940 RmuC family; Region: RmuC; pfam02646 1366053005941 para-aminobenzoate synthase component I; Validated; Region: PRK07093 1366053005942 hypothetical protein; Provisional; Region: PRK07101 1366053005943 recombinase A; Provisional; Region: recA; PRK09354 1366053005944 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 1366053005945 hexamer interface [polypeptide binding]; other site 1366053005946 Walker A motif; other site 1366053005947 ATP binding site [chemical binding]; other site 1366053005948 Walker B motif; other site 1366053005949 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1366053005950 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1366053005951 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1366053005952 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1366053005953 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1366053005954 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1366053005955 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1366053005956 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1366053005957 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1366053005958 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1366053005959 shikimate binding site; other site 1366053005960 NAD(P) binding site [chemical binding]; other site 1366053005961 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1366053005962 Part of AAA domain; Region: AAA_19; pfam13245 1366053005963 Family description; Region: UvrD_C_2; pfam13538 1366053005964 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1366053005965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1366053005966 NAD(P) binding site [chemical binding]; other site 1366053005967 active site 1366053005968 arginine repressor; Provisional; Region: PRK05066 1366053005969 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1366053005970 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1366053005971 malate dehydrogenase; Provisional; Region: PRK05086 1366053005972 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1366053005973 NAD binding site [chemical binding]; other site 1366053005974 dimerization interface [polypeptide binding]; other site 1366053005975 Substrate binding site [chemical binding]; other site 1366053005976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1366053005977 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1366053005978 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1366053005979 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 1366053005980 motif I; other site 1366053005981 motif II; other site 1366053005982 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1366053005983 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1366053005984 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 1366053005985 rRNA binding site [nucleotide binding]; other site 1366053005986 predicted 30S ribosome binding site; other site 1366053005987 Predicted flavoproteins [General function prediction only]; Region: COG2081 1366053005988 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1366053005989 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1366053005990 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1366053005991 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1366053005992 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 1366053005993 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 1366053005994 LexA regulated protein; Provisional; Region: PRK11675 1366053005995 flavodoxin FldA; Validated; Region: PRK09267 1366053005996 ferric uptake regulator; Provisional; Region: fur; PRK09462 1366053005997 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1366053005998 metal binding site 2 [ion binding]; metal-binding site 1366053005999 putative DNA binding helix; other site 1366053006000 metal binding site 1 [ion binding]; metal-binding site 1366053006001 dimer interface [polypeptide binding]; other site 1366053006002 structural Zn2+ binding site [ion binding]; other site 1366053006003 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1366053006004 mce related protein; Region: MCE; pfam02470 1366053006005 mce related protein; Region: MCE; pfam02470 1366053006006 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1366053006007 mce related protein; Region: MCE; pfam02470 1366053006008 mce related protein; Region: MCE; pfam02470 1366053006009 mce related protein; Region: MCE; pfam02470 1366053006010 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1366053006011 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1366053006012 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1366053006013 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1366053006014 Walker A/P-loop; other site 1366053006015 ATP binding site [chemical binding]; other site 1366053006016 Q-loop/lid; other site 1366053006017 ABC transporter signature motif; other site 1366053006018 Walker B; other site 1366053006019 D-loop; other site 1366053006020 H-loop/switch region; other site 1366053006021 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1366053006022 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1366053006023 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 1366053006024 Walker A motif; other site 1366053006025 ATP binding site [chemical binding]; other site 1366053006026 Walker B motif; other site 1366053006027 arginine finger; other site 1366053006028 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 1366053006029 DnaA box-binding interface [nucleotide binding]; other site 1366053006030 DNA polymerase III subunit beta; Validated; Region: PRK05643 1366053006031 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 1366053006032 putative DNA binding surface [nucleotide binding]; other site 1366053006033 dimer interface [polypeptide binding]; other site 1366053006034 beta-clamp/clamp loader binding surface; other site 1366053006035 beta-clamp/translesion DNA polymerase binding surface; other site 1366053006036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1366053006037 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1366053006038 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1366053006039 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 1366053006040 dimer interface [polypeptide binding]; other site 1366053006041 motif 1; other site 1366053006042 active site 1366053006043 motif 2; other site 1366053006044 motif 3; other site 1366053006045 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 1366053006046 anticodon binding site; other site 1366053006047 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1366053006048 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1366053006049 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1366053006050 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 1366053006051 non-specific DNA binding site [nucleotide binding]; other site 1366053006052 salt bridge; other site 1366053006053 sequence-specific DNA binding site [nucleotide binding]; other site 1366053006054 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1366053006055 argininosuccinate lyase; Provisional; Region: PRK04833 1366053006056 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1366053006057 active sites [active] 1366053006058 tetramer interface [polypeptide binding]; other site 1366053006059 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1366053006060 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 1366053006061 Ligand Binding Site [chemical binding]; other site 1366053006062 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1366053006063 active site 1366053006064 NTP binding site [chemical binding]; other site 1366053006065 metal binding triad [ion binding]; metal-binding site 1366053006066 antibiotic binding site [chemical binding]; other site 1366053006067 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1366053006068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1366053006069 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1366053006070 ApbE family; Region: ApbE; pfam02424 1366053006071 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1366053006072 active site 1366053006073 NTP binding site [chemical binding]; other site 1366053006074 metal binding triad [ion binding]; metal-binding site 1366053006075 antibiotic binding site [chemical binding]; other site 1366053006076 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1366053006077 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1366053006078 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1366053006079 FAD binding pocket [chemical binding]; other site 1366053006080 FAD binding motif [chemical binding]; other site 1366053006081 phosphate binding motif [ion binding]; other site 1366053006082 beta-alpha-beta structure motif; other site 1366053006083 NAD binding pocket [chemical binding]; other site 1366053006084 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1366053006085 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1366053006086 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1366053006087 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1366053006088 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1366053006089 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1366053006090 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 1366053006091 E3 interaction surface; other site 1366053006092 lipoyl attachment site [posttranslational modification]; other site 1366053006093 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1366053006094 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1366053006095 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1366053006096 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1366053006097 CTP synthetase; Validated; Region: pyrG; PRK05380 1366053006098 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 1366053006099 Catalytic site [active] 1366053006100 active site 1366053006101 UTP binding site [chemical binding]; other site 1366053006102 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1366053006103 active site 1366053006104 putative oxyanion hole; other site 1366053006105 catalytic triad [active] 1366053006106 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1366053006107 active site 1366053006108 homotetramer interface [polypeptide binding]; other site 1366053006109 homodimer interface [polypeptide binding]; other site 1366053006110 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1366053006111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053006112 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1366053006113 substrate binding site [chemical binding]; other site 1366053006114 dimerization interface [polypeptide binding]; other site 1366053006115 dUMP phosphatase; Provisional; Region: PRK09449 1366053006116 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 1366053006117 motif II; other site 1366053006118 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1366053006119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053006120 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 1366053006121 dimerization interface [polypeptide binding]; other site 1366053006122 substrate binding pocket [chemical binding]; other site 1366053006123 GTPase RsgA; Reviewed; Region: PRK12288 1366053006124 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 1366053006125 RNA binding site [nucleotide binding]; other site 1366053006126 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1366053006127 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1366053006128 GTP/Mg2+ binding site [chemical binding]; other site 1366053006129 G4 box; other site 1366053006130 G5 box; other site 1366053006131 G1 box; other site 1366053006132 Switch I region; other site 1366053006133 G2 box; other site 1366053006134 G3 box; other site 1366053006135 Switch II region; other site 1366053006136 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1366053006137 RNA/DNA hybrid binding site [nucleotide binding]; other site 1366053006138 active site 1366053006139 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1366053006140 nucleotide binding site/active site [active] 1366053006141 HIT family signature motif; other site 1366053006142 catalytic residue [active] 1366053006143 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1366053006144 putative dimer interface [polypeptide binding]; other site 1366053006145 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1366053006146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1366053006147 Peptidase M15; Region: Peptidase_M15_3; cl01194 1366053006148 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1366053006149 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1366053006150 carboxy-terminal protease; Provisional; Region: PRK11186 1366053006151 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1366053006152 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 1366053006153 protein binding site [polypeptide binding]; other site 1366053006154 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1366053006155 Catalytic dyad [active] 1366053006156 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1366053006157 ProQ/FINO family; Region: ProQ; pfam04352 1366053006158 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 1366053006159 DNA-binding site [nucleotide binding]; DNA binding site 1366053006160 RNA-binding motif; other site 1366053006161 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1366053006162 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 1366053006163 putative substrate translocation pore; other site 1366053006164 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1366053006165 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1366053006166 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1366053006167 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1366053006168 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 1366053006169 motif I; other site 1366053006170 active site 1366053006171 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1366053006172 acetylornithine deacetylase; Provisional; Region: PRK05111 1366053006173 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1366053006174 metal binding site [ion binding]; metal-binding site 1366053006175 putative dimer interface [polypeptide binding]; other site 1366053006176 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1366053006177 outer membrane lipoprotein; Provisional; Region: PRK11023 1366053006178 BON domain; Region: BON; pfam04972 1366053006179 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1366053006180 dimer interface [polypeptide binding]; other site 1366053006181 active site 1366053006182 hypothetical protein; Reviewed; Region: PRK12497 1366053006183 LppC putative lipoprotein; Region: LppC; pfam04348 1366053006184 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1366053006185 putative ligand binding site [chemical binding]; other site 1366053006186 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1366053006187 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1366053006188 putative SAM binding site [chemical binding]; other site 1366053006189 putative homodimer interface [polypeptide binding]; other site 1366053006190 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 1366053006191 putative substrate translocation pore; other site 1366053006192 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1366053006193 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1366053006194 Na binding site [ion binding]; other site 1366053006195 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1366053006196 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1366053006197 Bacterial transcriptional regulator; Region: IclR; pfam01614 1366053006198 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1366053006199 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1366053006200 Cell division protein ZapA; Region: ZapA; pfam05164 1366053006201 hypothetical protein; Reviewed; Region: PRK01736 1366053006202 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1366053006203 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 1366053006204 substrate binding site [chemical binding]; other site 1366053006205 active site 1366053006206 Protein of unknown function (DUF416); Region: DUF416; cl01166 1366053006207 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 1366053006208 IHF dimer interface [polypeptide binding]; other site 1366053006209 IHF - DNA interface [nucleotide binding]; other site 1366053006210 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1366053006211 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 1366053006212 homodimer interface [polypeptide binding]; other site 1366053006213 oligonucleotide binding site [chemical binding]; other site 1366053006214 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1366053006215 Isochorismatase family; Region: Isochorismatase; pfam00857 1366053006216 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 1366053006217 catalytic triad [active] 1366053006218 conserved cis-peptide bond; other site 1366053006219 Cupin; Region: Cupin_6; pfam12852 1366053006220 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053006221 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1366053006222 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1366053006223 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1366053006224 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 1366053006225 intersubunit interface [polypeptide binding]; other site 1366053006226 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 1366053006227 metal binding site [ion binding]; metal-binding site 1366053006228 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1366053006229 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 1366053006230 PhnA protein; Region: PhnA; pfam03831 1366053006231 ribonuclease R; Region: RNase_R; TIGR02063 1366053006232 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1366053006233 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1366053006234 RNB domain; Region: RNB; pfam00773 1366053006235 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 1366053006236 RNA binding site [nucleotide binding]; other site 1366053006237 cell division protein MraZ; Reviewed; Region: PRK00326 1366053006238 MraZ protein; Region: MraZ; pfam02381 1366053006239 MraZ protein; Region: MraZ; pfam02381 1366053006240 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1366053006241 MraW methylase family; Region: Methyltransf_5; pfam01795 1366053006242 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1366053006243 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1366053006244 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1366053006245 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1366053006246 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1366053006247 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1366053006248 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1366053006249 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1366053006250 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1366053006251 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1366053006252 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1366053006253 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1366053006254 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1366053006255 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 1366053006256 Mg++ binding site [ion binding]; other site 1366053006257 putative catalytic motif [active] 1366053006258 putative substrate binding site [chemical binding]; other site 1366053006259 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1366053006260 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1366053006261 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1366053006262 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1366053006263 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1366053006264 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 1366053006265 active site 1366053006266 homodimer interface [polypeptide binding]; other site 1366053006267 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1366053006268 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1366053006269 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1366053006270 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1366053006271 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1366053006272 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1366053006273 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1366053006274 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1366053006275 Cell division protein FtsQ; Region: FtsQ; pfam03799 1366053006276 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1366053006277 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1366053006278 nucleotide binding site [chemical binding]; other site 1366053006279 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1366053006280 Cell division protein FtsA; Region: FtsA; pfam14450 1366053006281 cell division protein FtsZ; Validated; Region: PRK09330 1366053006282 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 1366053006283 nucleotide binding site [chemical binding]; other site 1366053006284 SulA interaction site; other site 1366053006285 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1366053006286 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1366053006287 recombination and repair protein; Provisional; Region: PRK10869 1366053006288 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1366053006289 Walker A/P-loop; other site 1366053006290 ATP binding site [chemical binding]; other site 1366053006291 Q-loop/lid; other site 1366053006292 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1366053006293 ABC transporter signature motif; other site 1366053006294 Walker B; other site 1366053006295 D-loop; other site 1366053006296 H-loop/switch region; other site 1366053006297 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1366053006298 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1366053006299 HIGH motif; other site 1366053006300 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1366053006301 active site 1366053006302 KMSKS motif; other site 1366053006303 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1366053006304 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 1366053006305 substrate binding pocket [chemical binding]; other site 1366053006306 membrane-bound complex binding site; other site 1366053006307 hinge residues; other site 1366053006308 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 1366053006309 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1366053006310 catalytic residue [active] 1366053006311 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1366053006312 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 1366053006313 dimerization interface [polypeptide binding]; other site 1366053006314 active site 1366053006315 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1366053006316 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1366053006317 DNA polymerase III subunit chi; Validated; Region: PRK05728 1366053006318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1366053006319 Coenzyme A binding pocket [chemical binding]; other site 1366053006320 Fic family protein [Function unknown]; Region: COG3177 1366053006321 Fic/DOC family; Region: Fic; pfam02661 1366053006322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1366053006323 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1366053006324 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1366053006325 HIGH motif; other site 1366053006326 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1366053006327 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1366053006328 active site 1366053006329 KMSKS motif; other site 1366053006330 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1366053006331 tRNA binding surface [nucleotide binding]; other site 1366053006332 anticodon binding site; other site 1366053006333 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1366053006334 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_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 hydrolases; its...; Region: NnaC_like; cd01841 1366053006335 active site 1366053006336 catalytic triad [active] 1366053006337 oxyanion hole [active] 1366053006338 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1366053006339 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1366053006340 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1366053006341 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1366053006342 aspartate racemase; Region: asp_race; TIGR00035 1366053006343 ORF6N domain; Region: ORF6N; pfam10543 1366053006344 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1366053006345 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 1366053006346 putative active site [active] 1366053006347 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1366053006348 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1366053006349 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1366053006350 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1366053006351 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 1366053006352 active site 1366053006353 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1366053006354 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 1366053006355 dimer interface [polypeptide binding]; other site 1366053006356 ADP-ribose binding site [chemical binding]; other site 1366053006357 active site 1366053006358 nudix motif; other site 1366053006359 metal binding site [ion binding]; metal-binding site 1366053006360 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 1366053006361 RNA binding surface [nucleotide binding]; other site 1366053006362 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1366053006363 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 1366053006364 dimerization interface [polypeptide binding]; other site 1366053006365 domain crossover interface; other site 1366053006366 redox-dependent activation switch; other site 1366053006367 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1366053006368 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1366053006369 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 1366053006370 metal binding site [ion binding]; metal-binding site 1366053006371 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 1366053006372 dimer interface [polypeptide binding]; other site 1366053006373 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1366053006374 metal binding site [ion binding]; metal-binding site 1366053006375 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 1366053006376 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1366053006377 substrate binding site [chemical binding]; other site 1366053006378 glutamase interaction surface [polypeptide binding]; other site 1366053006379 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 1366053006380 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1366053006381 catalytic residues [active] 1366053006382 BRO family, N-terminal domain; Region: Bro-N; smart01040 1366053006383 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1366053006384 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1366053006385 putative active site [active] 1366053006386 oxyanion strand; other site 1366053006387 catalytic triad [active] 1366053006388 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1366053006389 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 1366053006390 active site 1366053006391 motif I; other site 1366053006392 motif II; other site 1366053006393 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1366053006394 putative active site pocket [active] 1366053006395 4-fold oligomerization interface [polypeptide binding]; other site 1366053006396 metal binding residues [ion binding]; metal-binding site 1366053006397 3-fold/trimer interface [polypeptide binding]; other site 1366053006398 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1366053006399 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 1366053006400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053006401 homodimer interface [polypeptide binding]; other site 1366053006402 catalytic residue [active] 1366053006403 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1366053006404 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1366053006405 Coenzyme A binding pocket [chemical binding]; other site 1366053006406 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1366053006407 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1366053006408 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1366053006409 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 1366053006410 S-adenosylmethionine binding site [chemical binding]; other site 1366053006411 DNA polymerase III subunit psi; Validated; Region: PRK06856 1366053006412 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1366053006413 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1366053006414 Coenzyme A binding pocket [chemical binding]; other site 1366053006415 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1366053006416 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1366053006417 G1 box; other site 1366053006418 putative GEF interaction site [polypeptide binding]; other site 1366053006419 GTP/Mg2+ binding site [chemical binding]; other site 1366053006420 Switch I region; other site 1366053006421 G2 box; other site 1366053006422 G3 box; other site 1366053006423 Switch II region; other site 1366053006424 G4 box; other site 1366053006425 G5 box; other site 1366053006426 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 1366053006427 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 1366053006428 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1366053006429 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1366053006430 catalytic residue [active] 1366053006431 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1366053006432 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 1366053006433 active site 1366053006434 motif I; other site 1366053006435 motif II; other site 1366053006436 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1366053006437 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1366053006438 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1366053006439 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1366053006440 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1366053006441 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 1366053006442 DNA binding residues [nucleotide binding] 1366053006443 integrase; Provisional; Region: PRK09692 1366053006444 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1366053006445 active site 1366053006446 Int/Topo IB signature motif; other site 1366053006447 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1366053006448 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1366053006449 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1366053006450 Terminase small subunit; Region: Terminase_2; pfam03592 1366053006451 Autotransporter beta-domain; Region: Autotransporter; cl17461 1366053006452 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1366053006453 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1366053006454 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 1366053006455 trimer interface [polypeptide binding]; other site 1366053006456 active site 1366053006457 substrate binding site [chemical binding]; other site 1366053006458 CoA binding site [chemical binding]; other site 1366053006459 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1366053006460 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1366053006461 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1366053006462 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1366053006463 SecA binding site; other site 1366053006464 Preprotein binding site; other site 1366053006465 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1366053006466 active site residue [active] 1366053006467 trigger factor; Provisional; Region: tig; PRK01490 1366053006468 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1366053006469 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1366053006470 elongation factor Tu; Reviewed; Region: PRK00049 1366053006471 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1366053006472 G1 box; other site 1366053006473 GEF interaction site [polypeptide binding]; other site 1366053006474 GTP/Mg2+ binding site [chemical binding]; other site 1366053006475 Switch I region; other site 1366053006476 G2 box; other site 1366053006477 G3 box; other site 1366053006478 Switch II region; other site 1366053006479 G4 box; other site 1366053006480 G5 box; other site 1366053006481 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 1366053006482 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 1366053006483 Antibiotic Binding Site [chemical binding]; other site 1366053006484 elongation factor G; Reviewed; Region: PRK00007 1366053006485 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1366053006486 G1 box; other site 1366053006487 putative GEF interaction site [polypeptide binding]; other site 1366053006488 GTP/Mg2+ binding site [chemical binding]; other site 1366053006489 Switch I region; other site 1366053006490 G2 box; other site 1366053006491 G3 box; other site 1366053006492 Switch II region; other site 1366053006493 G4 box; other site 1366053006494 G5 box; other site 1366053006495 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 1366053006496 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 1366053006497 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 1366053006498 30S ribosomal protein S7; Validated; Region: PRK05302 1366053006499 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 1366053006500 S17 interaction site [polypeptide binding]; other site 1366053006501 S8 interaction site; other site 1366053006502 16S rRNA interaction site [nucleotide binding]; other site 1366053006503 streptomycin interaction site [chemical binding]; other site 1366053006504 23S rRNA interaction site [nucleotide binding]; other site 1366053006505 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1366053006506 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1366053006507 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1366053006508 putative active site [active] 1366053006509 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1366053006510 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1366053006511 putative active site [active] 1366053006512 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1366053006513 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1366053006514 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1366053006515 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1366053006516 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1366053006517 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1366053006518 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 1366053006519 ATP binding site [chemical binding]; other site 1366053006520 putative Mg++ binding site [ion binding]; other site 1366053006521 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; cl17351 1366053006522 nucleotide binding region [chemical binding]; other site 1366053006523 ATP-binding site [chemical binding]; other site 1366053006524 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1366053006525 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1366053006526 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 1366053006527 S-adenosylmethionine binding site [chemical binding]; other site 1366053006528 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1366053006529 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1366053006530 Divergent AAA domain; Region: AAA_4; pfam04326 1366053006531 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1366053006532 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053006533 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1366053006534 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053006535 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 1366053006536 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1366053006537 active site 1366053006538 DNA binding site [nucleotide binding] 1366053006539 Int/Topo IB signature motif; other site 1366053006540 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053006541 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1366053006542 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1366053006543 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1366053006544 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1366053006545 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1366053006546 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1366053006547 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 1366053006548 active pocket/dimerization site; other site 1366053006549 active site 1366053006550 phosphorylation site [posttranslational modification] 1366053006551 PTS_IIB, PTS system, Mannose/sorbose specific IIB 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_IIB_man; cd00001 1366053006552 active site 1366053006553 phosphorylation site [posttranslational modification] 1366053006554 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1366053006555 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1366053006556 hypothetical protein; Provisional; Region: PRK02913 1366053006557 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 1366053006558 triosephosphate isomerase; Provisional; Region: PRK14567 1366053006559 substrate binding site [chemical binding]; other site 1366053006560 dimer interface [polypeptide binding]; other site 1366053006561 catalytic triad [active] 1366053006562 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1366053006563 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1366053006564 active site 1366053006565 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1366053006566 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1366053006567 Predicted membrane protein [Function unknown]; Region: COG1238 1366053006568 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1366053006569 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1366053006570 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1366053006571 Peptidase family M23; Region: Peptidase_M23; pfam01551 1366053006572 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1366053006573 acyl carrier protein; Provisional; Region: acpP; PRK00982 1366053006574 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 1366053006575 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1366053006576 substrate binding site [chemical binding]; other site 1366053006577 hexamer interface [polypeptide binding]; other site 1366053006578 metal binding site [ion binding]; metal-binding site 1366053006579 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1366053006580 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1366053006581 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1366053006582 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 1366053006583 substrate binding pocket [chemical binding]; other site 1366053006584 membrane-bound complex binding site; other site 1366053006585 hinge residues; other site 1366053006586 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1366053006587 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 1366053006588 dimer interface [polypeptide binding]; other site 1366053006589 conserved gate region; other site 1366053006590 putative PBP binding loops; other site 1366053006591 ABC-ATPase subunit interface; other site 1366053006592 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1366053006593 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1366053006594 Walker A/P-loop; other site 1366053006595 ATP binding site [chemical binding]; other site 1366053006596 Q-loop/lid; other site 1366053006597 ABC transporter signature motif; other site 1366053006598 Walker B; other site 1366053006599 D-loop; other site 1366053006600 H-loop/switch region; other site 1366053006601 YGGT family; Region: YGGT; pfam02325 1366053006602 YGGT family; Region: YGGT; pfam02325 1366053006603 hypothetical protein; Provisional; Region: PRK11702 1366053006604 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 1366053006605 S-adenosylmethionine binding site [chemical binding]; other site 1366053006606 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1366053006607 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 1366053006608 dimer interface [polypeptide binding]; other site 1366053006609 active site 1366053006610 CoA binding pocket [chemical binding]; other site 1366053006611 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 1366053006612 dimer interface [polypeptide binding]; other site 1366053006613 allosteric magnesium binding site [ion binding]; other site 1366053006614 active site 1366053006615 aspartate-rich active site metal binding site; other site 1366053006616 Schiff base residues; other site 1366053006617 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1366053006618 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1366053006619 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1366053006620 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1366053006621 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1366053006622 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1366053006623 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1366053006624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1366053006625 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1366053006626 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1366053006627 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 1366053006628 S-adenosylmethionine binding site [chemical binding]; other site 1366053006629 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1366053006630 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1366053006631 Cl binding site [ion binding]; other site 1366053006632 oligomer interface [polypeptide binding]; other site 1366053006633 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1366053006634 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 1366053006635 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1366053006636 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1366053006637 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1366053006638 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1366053006639 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 1366053006640 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1366053006641 substrate binding site [chemical binding]; other site 1366053006642 oxyanion hole (OAH) forming residues; other site 1366053006643 trimer interface [polypeptide binding]; other site 1366053006644 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1366053006645 Transglycosylase; Region: Transgly; pfam00912 1366053006646 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1366053006647 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1366053006648 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1366053006649 dimerization interface [polypeptide binding]; other site 1366053006650 DPS ferroxidase diiron center [ion binding]; other site 1366053006651 ion pore; other site 1366053006652 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1366053006653 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 1366053006654 S-adenosylmethionine binding site [chemical binding]; other site 1366053006655 ornithine carbamoyltransferase; Provisional; Region: PRK01713 1366053006656 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1366053006657 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1366053006658 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1366053006659 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1366053006660 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1366053006661 Predicted membrane protein [Function unknown]; Region: COG2259 1366053006662 DNA utilization protein GntX; Provisional; Region: PRK11595 1366053006663 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1366053006664 active site 1366053006665 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 1366053006666 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1366053006667 active site 1366053006668 motif I; other site 1366053006669 motif II; other site 1366053006670 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1366053006671 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1366053006672 EamA-like transporter family; Region: EamA; pfam00892 1366053006673 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1366053006674 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1366053006675 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1366053006676 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1366053006677 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1366053006678 substrate binding pocket [chemical binding]; other site 1366053006679 chain length determination region; other site 1366053006680 substrate-Mg2+ binding site; other site 1366053006681 catalytic residues [active] 1366053006682 aspartate-rich region 1; other site 1366053006683 active site lid residues [active] 1366053006684 aspartate-rich region 2; other site 1366053006685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1366053006686 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1366053006687 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1366053006688 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1366053006689 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1366053006690 NAD(P) binding site [chemical binding]; other site 1366053006691 homotetramer interface [polypeptide binding]; other site 1366053006692 homodimer interface [polypeptide binding]; other site 1366053006693 active site 1366053006694 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 1366053006695 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1366053006696 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1366053006697 DNA binding site [nucleotide binding] 1366053006698 catalytic residue [active] 1366053006699 H2TH interface [polypeptide binding]; other site 1366053006700 putative catalytic residues [active] 1366053006701 turnover-facilitating residue; other site 1366053006702 intercalation triad [nucleotide binding]; other site 1366053006703 8OG recognition residue [nucleotide binding]; other site 1366053006704 putative reading head residues; other site 1366053006705 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1366053006706 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1366053006707 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1366053006708 putative active site [active] 1366053006709 dimerization interface [polypeptide binding]; other site 1366053006710 putative tRNAtyr binding site [nucleotide binding]; other site 1366053006711 hypothetical protein; Reviewed; Region: PRK01637 1366053006712 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1366053006713 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1366053006714 putative catalytic cysteine [active] 1366053006715 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1366053006716 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 1366053006717 ATP binding site [chemical binding]; other site 1366053006718 Mg2+ binding site [ion binding]; other site 1366053006719 G-X-G motif; other site 1366053006720 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1366053006721 ATP binding site [chemical binding]; other site 1366053006722 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1366053006723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1366053006724 RelB antitoxin; Region: RelB; cl01171 1366053006725 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1366053006726 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1366053006727 bacterial Hfq-like; Region: Hfq; cd01716 1366053006728 hexamer interface [polypeptide binding]; other site 1366053006729 Sm1 motif; other site 1366053006730 RNA binding site [nucleotide binding]; other site 1366053006731 Sm2 motif; other site 1366053006732 GTPase HflX; Provisional; Region: PRK11058 1366053006733 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1366053006734 HflX GTPase family; Region: HflX; cd01878 1366053006735 G1 box; other site 1366053006736 GTP/Mg2+ binding site [chemical binding]; other site 1366053006737 Switch I region; other site 1366053006738 G2 box; other site 1366053006739 G3 box; other site 1366053006740 Switch II region; other site 1366053006741 G4 box; other site 1366053006742 G5 box; other site 1366053006743 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1366053006744 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1366053006745 trimer interface [polypeptide binding]; other site 1366053006746 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1366053006747 trimer interface [polypeptide binding]; other site 1366053006748 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1366053006749 trimer interface [polypeptide binding]; other site 1366053006750 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1366053006751 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1366053006752 Haemagglutinin; Region: HIM; pfam05662 1366053006753 YadA-like C-terminal region; Region: YadA; pfam03895 1366053006754 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1366053006755 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1366053006756 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1366053006757 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1366053006758 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1366053006759 nucleotide binding site [chemical binding]; other site 1366053006760 chaperone protein DnaJ; Provisional; Region: PRK10767 1366053006761 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 1366053006762 HSP70 interaction site [polypeptide binding]; other site 1366053006763 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1366053006764 substrate binding site [polypeptide binding]; other site 1366053006765 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1366053006766 Zn binding sites [ion binding]; other site 1366053006767 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1366053006768 dimer interface [polypeptide binding]; other site 1366053006769 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1366053006770 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1366053006771 tetramer interface [polypeptide binding]; other site 1366053006772 heme binding pocket [chemical binding]; other site 1366053006773 NADPH binding site [chemical binding]; other site 1366053006774 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 1366053006775 CPxP motif; other site 1366053006776 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1366053006777 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1366053006778 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1366053006779 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1366053006780 metal binding site [ion binding]; metal-binding site 1366053006781 dimer interface [polypeptide binding]; other site 1366053006782 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 1366053006783 ArsC family; Region: ArsC; pfam03960 1366053006784 putative catalytic residues [active] 1366053006785 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 1366053006786 dihydropteroate synthase; Region: DHPS; TIGR01496 1366053006787 substrate binding pocket [chemical binding]; other site 1366053006788 dimer interface [polypeptide binding]; other site 1366053006789 inhibitor binding site; inhibition site 1366053006790 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1366053006791 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 1366053006792 RNA binding surface [nucleotide binding]; other site 1366053006793 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1366053006794 active site 1366053006795 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1366053006796 Conserved TM helix; Region: TM_helix; pfam05552 1366053006797 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1366053006798 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1366053006799 Patatin-like phospholipase; Region: Patatin; pfam01734 1366053006800 active site 1366053006801 nucleophile elbow; other site 1366053006802 Predicted flavoprotein [General function prediction only]; Region: COG0431 1366053006803 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1366053006804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1366053006805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1366053006806 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 1366053006807 dimerization interface [polypeptide binding]; other site 1366053006808 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1366053006809 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 1366053006810 active site 1366053006811 FMN binding site [chemical binding]; other site 1366053006812 substrate binding site [chemical binding]; other site 1366053006813 homotetramer interface [polypeptide binding]; other site 1366053006814 catalytic residue [active] 1366053006815 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 1366053006816 dimer interface [polypeptide binding]; other site 1366053006817 FMN binding site [chemical binding]; other site 1366053006818 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1366053006819 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1366053006820 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1366053006821 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1366053006822 putative NAD(P) binding site [chemical binding]; other site 1366053006823 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1366053006824 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1366053006825 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1366053006826 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1366053006827 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1366053006828 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1366053006829 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1366053006830 putative NAD(P) binding site [chemical binding]; other site 1366053006831 putative substrate binding site [chemical binding]; other site 1366053006832 catalytic Zn binding site [ion binding]; other site 1366053006833 structural Zn binding site [ion binding]; other site 1366053006834 dimer interface [polypeptide binding]; other site 1366053006835 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1366053006836 S-formylglutathione hydrolase; Region: PLN02442 1366053006837 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1366053006838 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 1366053006839 phosphate binding site [ion binding]; other site 1366053006840 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 1366053006841 putative active site [active] 1366053006842 Ap4A binding site [chemical binding]; other site 1366053006843 nudix motif; other site 1366053006844 putative metal binding site [ion binding]; other site 1366053006845 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1366053006846 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1366053006847 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1366053006848 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1366053006849 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1366053006850 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 1366053006851 motif II; other site 1366053006852 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1366053006853 PemK-like protein; Region: PemK; pfam02452 1366053006854 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1366053006855 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1366053006856 active site 1366053006857 HIGH motif; other site 1366053006858 dimer interface [polypeptide binding]; other site 1366053006859 KMSKS motif; other site 1366053006860 Peptidase family M48; Region: Peptidase_M48; pfam01435 1366053006861 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 1366053006862 dimer interface [polypeptide binding]; other site 1366053006863 substrate binding site [chemical binding]; other site 1366053006864 metal binding sites [ion binding]; metal-binding site 1366053006865 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1366053006866 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1366053006867 dimerization interface [polypeptide binding]; other site 1366053006868 thymidylate kinase; Validated; Region: tmk; PRK00698 1366053006869 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 1366053006870 TMP-binding site; other site 1366053006871 ATP-binding site [chemical binding]; other site 1366053006872 DNA polymerase III subunit delta'; Validated; Region: PRK06871 1366053006873 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1366053006874 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1366053006875 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1366053006876 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1366053006877 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1366053006878 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1366053006879 active site 1366053006880 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1366053006881 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1366053006882 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1366053006883 putative active site [active] 1366053006884 putative metal binding site [ion binding]; other site 1366053006885 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1366053006886 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 1366053006887 active site 1366053006888 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 1366053006889 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1366053006890 DNA-binding site [nucleotide binding]; DNA binding site 1366053006891 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 1366053006892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053006893 homodimer interface [polypeptide binding]; other site 1366053006894 catalytic residue [active] 1366053006895 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1366053006896 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1366053006897 active site 1366053006898 multimer interface [polypeptide binding]; other site 1366053006899 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1366053006900 predicted active site [active] 1366053006901 catalytic triad [active] 1366053006902 transaldolase-like protein; Provisional; Region: PTZ00411 1366053006903 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1366053006904 active site 1366053006905 dimer interface [polypeptide binding]; other site 1366053006906 catalytic residue [active] 1366053006907 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1366053006908 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1366053006909 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_4; cd07268 1366053006910 putative metal binding site [ion binding]; other site 1366053006911 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1366053006912 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1366053006913 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1366053006914 active site 1366053006915 HIGH motif; other site 1366053006916 KMSK motif region; other site 1366053006917 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1366053006918 tRNA binding surface [nucleotide binding]; other site 1366053006919 anticodon binding site; other site 1366053006920 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1366053006921 GTP1/OBG; Region: GTP1_OBG; pfam01018 1366053006922 Obg GTPase; Region: Obg; cd01898 1366053006923 G1 box; other site 1366053006924 GTP/Mg2+ binding site [chemical binding]; other site 1366053006925 Switch I region; other site 1366053006926 G2 box; other site 1366053006927 G3 box; other site 1366053006928 Switch II region; other site 1366053006929 G4 box; other site 1366053006930 G5 box; other site 1366053006931 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1366053006932 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1366053006933 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1366053006934 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1366053006935 heme exporter protein CcmC; Region: ccmC; TIGR01191 1366053006936 heme exporter protein CcmB; Region: ccmB; TIGR01190 1366053006937 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1366053006938 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1366053006939 Walker A/P-loop; other site 1366053006940 ATP binding site [chemical binding]; other site 1366053006941 Q-loop/lid; other site 1366053006942 ABC transporter signature motif; other site 1366053006943 Walker B; other site 1366053006944 D-loop; other site 1366053006945 H-loop/switch region; other site 1366053006946 DNA replication initiation factor; Validated; Region: PRK06893 1366053006947 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1366053006948 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1366053006949 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1366053006950 peptide binding site [polypeptide binding]; other site 1366053006951 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1366053006952 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 1366053006953 dimer interface [polypeptide binding]; other site 1366053006954 conserved gate region; other site 1366053006955 putative PBP binding loops; other site 1366053006956 ABC-ATPase subunit interface; other site 1366053006957 dipeptide transporter; Provisional; Region: PRK10913 1366053006958 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1366053006959 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 1366053006960 dimer interface [polypeptide binding]; other site 1366053006961 conserved gate region; other site 1366053006962 putative PBP binding loops; other site 1366053006963 ABC-ATPase subunit interface; other site 1366053006964 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1366053006965 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053006966 Walker A/P-loop; other site 1366053006967 ATP binding site [chemical binding]; other site 1366053006968 Q-loop/lid; other site 1366053006969 ABC transporter signature motif; other site 1366053006970 Walker B; other site 1366053006971 D-loop; other site 1366053006972 H-loop/switch region; other site 1366053006973 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1366053006974 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1366053006975 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1366053006976 Walker A/P-loop; other site 1366053006977 ATP binding site [chemical binding]; other site 1366053006978 Q-loop/lid; other site 1366053006979 ABC transporter signature motif; other site 1366053006980 Walker B; other site 1366053006981 D-loop; other site 1366053006982 H-loop/switch region; other site 1366053006983 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1366053006984 RNA polymerase sigma factor; Provisional; Region: PRK12530 1366053006985 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1366053006986 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 1366053006987 DNA binding residues [nucleotide binding] 1366053006988 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1366053006989 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1366053006990 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053006991 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053006992 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053006993 Integrase core domain; Region: rve; pfam00665 1366053006994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053006995 Integrase core domain; Region: rve_3; pfam13683 1366053006996 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1366053006997 putative inner membrane peptidase; Provisional; Region: PRK11778 1366053006998 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1366053006999 tandem repeat interface [polypeptide binding]; other site 1366053007000 oligomer interface [polypeptide binding]; other site 1366053007001 active site residues [active] 1366053007002 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1366053007003 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1366053007004 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1366053007005 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1366053007006 eyelet of channel; other site 1366053007007 trimer interface [polypeptide binding]; other site 1366053007008 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053007009 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053007010 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053007011 Integrase core domain; Region: rve; pfam00665 1366053007012 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053007013 Integrase core domain; Region: rve_3; pfam13683 1366053007014 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1366053007015 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 1366053007016 WzyE protein; Region: WzyE; cl11643 1366053007017 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1366053007018 glutamine synthetase; Provisional; Region: glnA; PRK09469 1366053007019 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1366053007020 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1366053007021 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 1366053007022 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1366053007023 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1366053007024 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1366053007025 inhibitor-cofactor binding pocket; inhibition site 1366053007026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053007027 catalytic residue [active] 1366053007028 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1366053007029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1366053007030 Coenzyme A binding pocket [chemical binding]; other site 1366053007031 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1366053007032 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1366053007033 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1366053007034 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1366053007035 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1366053007036 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1366053007037 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1366053007038 Mg++ binding site [ion binding]; other site 1366053007039 putative catalytic motif [active] 1366053007040 substrate binding site [chemical binding]; other site 1366053007041 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1366053007042 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 1366053007043 inhibitor-cofactor binding pocket; inhibition site 1366053007044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1366053007045 catalytic residue [active] 1366053007046 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1366053007047 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 1366053007048 putative active site [active] 1366053007049 putative NTP binding site [chemical binding]; other site 1366053007050 putative nucleic acid binding site [nucleotide binding]; other site 1366053007051 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1366053007052 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1366053007053 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1366053007054 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1366053007055 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1366053007056 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1366053007057 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1366053007058 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1366053007059 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1366053007060 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1366053007061 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1366053007062 DNA binding site [nucleotide binding] 1366053007063 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1366053007064 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1366053007065 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 1366053007066 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1366053007067 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 1366053007068 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1366053007069 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 1366053007070 RPB1 interaction site [polypeptide binding]; other site 1366053007071 RPB11 interaction site [polypeptide binding]; other site 1366053007072 RPB10 interaction site [polypeptide binding]; other site 1366053007073 RPB3 interaction site [polypeptide binding]; other site 1366053007074 DsrH like protein; Region: DsrH; cl17347 1366053007075 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 1366053007076 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1366053007077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1366053007078 YheO-like PAS domain; Region: PAS_6; pfam08348 1366053007079 HTH domain; Region: HTH_22; pfam13309 1366053007080 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1366053007081 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1366053007082 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1366053007083 SlyX; Region: SlyX; cl01090 1366053007084 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1366053007085 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1366053007086 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1366053007087 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1366053007088 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 1366053007089 FeS/SAM binding site; other site 1366053007090 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1366053007091 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1366053007092 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1366053007093 Nucleoside recognition; Region: Gate; pfam07670 1366053007094 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1366053007095 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 1366053007096 FeS/SAM binding site; other site 1366053007097 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 1366053007098 Pyruvate formate lyase; Region: PFL; pfam02901 1366053007099 Pleckstrin homology-like domain; Region: PH-like; cl17171 1366053007100 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1366053007101 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 1366053007102 core dimer interface [polypeptide binding]; other site 1366053007103 peripheral dimer interface [polypeptide binding]; other site 1366053007104 L10 interface [polypeptide binding]; other site 1366053007105 L11 interface [polypeptide binding]; other site 1366053007106 putative EF-Tu interaction site [polypeptide binding]; other site 1366053007107 putative EF-G interaction site [polypeptide binding]; other site 1366053007108 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 1366053007109 23S rRNA interface [nucleotide binding]; other site 1366053007110 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1366053007111 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1366053007112 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1366053007113 dimer interface [polypeptide binding]; other site 1366053007114 active site 1366053007115 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1366053007116 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1366053007117 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 1366053007118 dimer interface [polypeptide binding]; other site 1366053007119 active site 1366053007120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1366053007121 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1366053007122 NAD(P) binding site [chemical binding]; other site 1366053007123 active site 1366053007124 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1366053007125 Divergent AAA domain; Region: AAA_4; pfam04326 1366053007126 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1366053007127 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1366053007128 putative active site 1 [active] 1366053007129 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 1366053007130 dimer interface [polypeptide binding]; other site 1366053007131 active site 1366053007132 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 1366053007133 mRNA/rRNA interface [nucleotide binding]; other site 1366053007134 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1366053007135 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 1366053007136 23S rRNA interface [nucleotide binding]; other site 1366053007137 L7/L12 interface [polypeptide binding]; other site 1366053007138 putative thiostrepton binding site; other site 1366053007139 L25 interface [polypeptide binding]; other site 1366053007140 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1366053007141 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1366053007142 putative homodimer interface [polypeptide binding]; other site 1366053007143 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1366053007144 heterodimer interface [polypeptide binding]; other site 1366053007145 homodimer interface [polypeptide binding]; other site 1366053007146 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1366053007147 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1366053007148 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1366053007149 DNA binding site [nucleotide binding] 1366053007150 domain linker motif; other site 1366053007151 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 1366053007152 putative ligand binding site [chemical binding]; other site 1366053007153 putative dimerization interface [polypeptide binding]; other site 1366053007154 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1366053007155 active site 1366053007156 P-loop; other site 1366053007157 phosphorylation site [posttranslational modification] 1366053007158 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1366053007159 DNA protecting protein DprA; Region: dprA; TIGR00732 1366053007160 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 1366053007161 active site 1366053007162 catalytic residues [active] 1366053007163 metal binding site [ion binding]; metal-binding site 1366053007164 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1366053007165 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1366053007166 NADP binding site [chemical binding]; other site 1366053007167 homopentamer interface [polypeptide binding]; other site 1366053007168 substrate binding site [chemical binding]; other site 1366053007169 active site 1366053007170 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 1366053007171 active site 1 [active] 1366053007172 dimer interface [polypeptide binding]; other site 1366053007173 active site 2 [active] 1366053007174 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1366053007175 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1366053007176 Organiser of macrodomain of Terminus of chromosome; Region: MatP; pfam06303 1366053007177 outer membrane protein A; Reviewed; Region: PRK10808 1366053007178 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1366053007179 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1366053007180 ligand binding site [chemical binding]; other site 1366053007181 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1366053007182 FAD binding domain; Region: FAD_binding_4; pfam01565 1366053007183 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1366053007184 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 1366053007185 CoenzymeA binding site [chemical binding]; other site 1366053007186 subunit interaction site [polypeptide binding]; other site 1366053007187 PHB binding site; other site 1366053007188 membrane protein insertase; Provisional; Region: PRK01318 1366053007189 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1366053007190 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1366053007191 dimer interface [polypeptide binding]; other site 1366053007192 catalytic triad [active] 1366053007193 peroxidatic and resolving cysteines [active] 1366053007194 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1366053007195 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1366053007196 putative acyl-acceptor binding pocket; other site 1366053007197 FtsI repressor; Provisional; Region: PRK10883 1366053007198 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1366053007199 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1366053007200 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1366053007201 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1366053007202 pyridoxamine kinase; Validated; Region: PRK05756 1366053007203 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 1366053007204 dimer interface [polypeptide binding]; other site 1366053007205 pyridoxal binding site [chemical binding]; other site 1366053007206 ATP binding site [chemical binding]; other site 1366053007207 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1366053007208 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1366053007209 catalytic triad [active] 1366053007210 putative active site [active] 1366053007211 autotransporter-associated beta strand repeat; Region: autotrns_rpt; TIGR02601 1366053007212 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1366053007213 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; cd00398 1366053007214 intersubunit interface [polypeptide binding]; other site 1366053007215 active site 1366053007216 Zn2+ binding site [ion binding]; other site 1366053007217 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1366053007218 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; cd00019 1366053007219 AP (apurinic/apyrimidinic) site pocket; other site 1366053007220 DNA interaction; other site 1366053007221 Metal-binding active site; metal-binding site 1366053007222 transcriptional repressor UlaR; Provisional; Region: PRK13509 1366053007223 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1366053007224 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1366053007225 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1366053007226 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1366053007227 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 1366053007228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1366053007229 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1366053007230 active site 1366053007231 P-loop; other site 1366053007232 phosphorylation site [posttranslational modification] 1366053007233 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1366053007234 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1366053007235 active site 1366053007236 metal binding site [ion binding]; metal-binding site 1366053007237 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1366053007238 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 1366053007239 active site 1366053007240 phosphorylation site [posttranslational modification] 1366053007241 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1366053007242 active site 1366053007243 dimer interface [polypeptide binding]; other site 1366053007244 magnesium binding site [ion binding]; other site 1366053007245 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1366053007246 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1366053007247 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1366053007248 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1366053007249 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1366053007250 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1366053007251 Domain of unknown function DUF302; Region: DUF302; cl01364 1366053007252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1366053007253 Putative esterase; Region: Esterase; pfam00756 1366053007254 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1366053007255 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1366053007256 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1366053007257 Flavodoxin; Region: Flavodoxin_1; pfam00258 1366053007258 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1366053007259 FAD binding pocket [chemical binding]; other site 1366053007260 conserved FAD binding motif [chemical binding]; other site 1366053007261 phosphate binding motif [ion binding]; other site 1366053007262 beta-alpha-beta structure motif; other site 1366053007263 NAD binding pocket [chemical binding]; other site 1366053007264 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1366053007265 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 1366053007266 23S rRNA interface [nucleotide binding]; other site 1366053007267 putative translocon interaction site; other site 1366053007268 signal recognition particle (SRP54) interaction site; other site 1366053007269 L23 interface [polypeptide binding]; other site 1366053007270 trigger factor interaction site; other site 1366053007271 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 1366053007272 23S rRNA interface [nucleotide binding]; other site 1366053007273 5S rRNA interface [nucleotide binding]; other site 1366053007274 putative antibiotic binding site [chemical binding]; other site 1366053007275 L25 interface [polypeptide binding]; other site 1366053007276 L27 interface [polypeptide binding]; other site 1366053007277 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1366053007278 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 1366053007279 G-X-X-G motif; other site 1366053007280 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1366053007281 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 1366053007282 protein-rRNA interface [nucleotide binding]; other site 1366053007283 putative translocon binding site; other site 1366053007284 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1366053007285 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1366053007286 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1366053007287 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1366053007288 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1366053007289 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1366053007290 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1366053007291 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1366053007292 TfoX N-terminal domain; Region: TfoX_N; cl17592 1366053007293 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1366053007294 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1366053007295 Class II fumarases; Region: Fumarase_classII; cd01362 1366053007296 active site 1366053007297 tetramer interface [polypeptide binding]; other site 1366053007298 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 1366053007299 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1366053007300 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1366053007301 active site 1366053007302 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1366053007303 substrate binding site [chemical binding]; other site 1366053007304 catalytic residues [active] 1366053007305 dimer interface [polypeptide binding]; other site 1366053007306 glutathionine S-transferase; Provisional; Region: PRK10542 1366053007307 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 1366053007308 C-terminal domain interface [polypeptide binding]; other site 1366053007309 GSH binding site (G-site) [chemical binding]; other site 1366053007310 dimer interface [polypeptide binding]; other site 1366053007311 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1366053007312 dimer interface [polypeptide binding]; other site 1366053007313 N-terminal domain interface [polypeptide binding]; other site 1366053007314 substrate binding pocket (H-site) [chemical binding]; other site 1366053007315 protease TldD; Provisional; Region: tldD; PRK10735 1366053007316 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1366053007317 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1366053007318 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1366053007319 Iron-sulfur protein interface; other site 1366053007320 proximal quinone binding site [chemical binding]; other site 1366053007321 C-subunit interface; other site 1366053007322 distal quinone binding site; other site 1366053007323 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1366053007324 D-subunit interface [polypeptide binding]; other site 1366053007325 Iron-sulfur protein interface; other site 1366053007326 proximal quinone binding site [chemical binding]; other site 1366053007327 distal quinone binding site [chemical binding]; other site 1366053007328 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1366053007329 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 1366053007330 catalytic loop [active] 1366053007331 iron binding site [ion binding]; other site 1366053007332 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1366053007333 L-aspartate oxidase; Provisional; Region: PRK06175 1366053007334 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1366053007335 poxB regulator PoxA; Provisional; Region: PRK09350 1366053007336 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 1366053007337 motif 1; other site 1366053007338 dimer interface [polypeptide binding]; other site 1366053007339 active site 1366053007340 motif 2; other site 1366053007341 motif 3; other site 1366053007342 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1366053007343 EamA-like transporter family; Region: EamA; pfam00892 1366053007344 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 1366053007345 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1366053007346 BCCT family transporter; Region: BCCT; pfam02028 1366053007347 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1366053007348 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1366053007349 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1366053007350 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1366053007351 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1366053007352 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1366053007353 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1366053007354 Cation transport protein; Region: TrkH; cl17365 1366053007355 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1366053007356 hypothetical protein; Provisional; Region: PRK11568 1366053007357 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1366053007358 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1366053007359 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1366053007360 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1366053007361 putative active site [active] 1366053007362 substrate binding site [chemical binding]; other site 1366053007363 putative cosubstrate binding site; other site 1366053007364 catalytic site [active] 1366053007365 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1366053007366 substrate binding site [chemical binding]; other site 1366053007367 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1366053007368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053007369 Walker A/P-loop; other site 1366053007370 ATP binding site [chemical binding]; other site 1366053007371 Q-loop/lid; other site 1366053007372 ABC transporter signature motif; other site 1366053007373 Walker B; other site 1366053007374 D-loop; other site 1366053007375 H-loop/switch region; other site 1366053007376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1366053007377 Walker A/P-loop; other site 1366053007378 ATP binding site [chemical binding]; other site 1366053007379 Q-loop/lid; other site 1366053007380 ABC transporter signature motif; other site 1366053007381 Walker B; other site 1366053007382 D-loop; other site 1366053007383 H-loop/switch region; other site 1366053007384 Protein of unknown function, DUF479; Region: DUF479; cl01203 1366053007385 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1366053007386 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 1366053007387 ABC-ATPase subunit interface; other site 1366053007388 dimer interface [polypeptide binding]; other site 1366053007389 putative PBP binding regions; other site 1366053007390 Winged helix-turn helix; Region: HTH_29; pfam13551 1366053007391 Helix-turn-helix domain; Region: HTH_28; pfam13518 1366053007392 Homeodomain-like domain; Region: HTH_32; pfam13565 1366053007393 Integrase core domain; Region: rve; pfam00665 1366053007394 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1366053007395 Integrase core domain; Region: rve_3; pfam13683 1366053007396 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1366053007397 Walker A/P-loop; other site 1366053007398 ATP binding site [chemical binding]; other site 1366053007399 ABC transporter; Region: ABC_tran; pfam00005 1366053007400 Q-loop/lid; other site 1366053007401 ABC transporter signature motif; other site 1366053007402 Walker B; other site 1366053007403 D-loop; other site 1366053007404 H-loop/switch region; other site 1366053007405 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 1366053007406 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1366053007407 intersubunit interface [polypeptide binding]; other site 1366053007408 lipoyl synthase; Provisional; Region: PRK05481 1366053007409 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 1366053007410 FeS/SAM binding site; other site 1366053007411 lipoate-protein ligase B; Provisional; Region: PRK14342 1366053007412 hypothetical protein; Provisional; Region: PRK04998 1366053007413 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1366053007414 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1366053007415 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1366053007416 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1366053007417 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1366053007418 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1366053007419 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1366053007420 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1366053007421 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1366053007422 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1366053007423 Oligomerisation domain; Region: Oligomerisation; cl00519 1366053007424 EamA-like transporter family; Region: EamA; cl17759 1366053007425 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1366053007426 EamA-like transporter family; Region: EamA; pfam00892 1366053007427 mannonate dehydratase; Provisional; Region: PRK03906 1366053007428 mannonate dehydratase; Region: uxuA; TIGR00695 1366053007429 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1366053007430 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1366053007431 DNA-binding site [nucleotide binding]; DNA binding site 1366053007432 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1366053007433 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1366053007434 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1366053007435 putative NAD(P) binding site [chemical binding]; other site 1366053007436 catalytic Zn binding site [ion binding]; other site 1366053007437 structural Zn binding site [ion binding]; other site 1366053007438 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1366053007439 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1366053007440 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1366053007441 DctM-like transporters; Region: DctM; pfam06808 1366053007442 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1366053007443 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1366053007444 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1366053007445 putative NAD(P) binding site [chemical binding]; other site 1366053007446 active site 1366053007447 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1366053007448 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 1366053007449 substrate binding site [chemical binding]; other site 1366053007450 ATP binding site [chemical binding]; other site 1366053007451 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1366053007452 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1366053007453 active site 1366053007454 intersubunit interface [polypeptide binding]; other site 1366053007455 catalytic residue [active] 1366053007456 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1366053007457 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1366053007458 MutS domain I; Region: MutS_I; pfam01624 1366053007459 MutS domain II; Region: MutS_II; pfam05188 1366053007460 MutS domain III; Region: MutS_III; pfam05192 1366053007461 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1366053007462 Walker A/P-loop; other site 1366053007463 ATP binding site [chemical binding]; other site 1366053007464 Q-loop/lid; other site 1366053007465 ABC transporter signature motif; other site 1366053007466 Walker B; other site 1366053007467 D-loop; other site 1366053007468 H-loop/switch region; other site 1366053007469 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1366053007470 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1366053007471 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1366053007472 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1366053007473 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 1366053007474 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1366053007475 catalytic residues [active] 1366053007476 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; cl17904 1366053007477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053007478 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1366053007479 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1366053007480 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1366053007481 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1366053007482 G1 box; other site 1366053007483 GTP/Mg2+ binding site [chemical binding]; other site 1366053007484 Switch I region; other site 1366053007485 G2 box; other site 1366053007486 Switch II region; other site 1366053007487 G3 box; other site 1366053007488 G4 box; other site 1366053007489 G5 box; other site 1366053007490 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1366053007491 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1366053007492 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 1366053007493 Ligand Binding Site [chemical binding]; other site 1366053007494 TilS substrate binding domain; Region: TilS; pfam09179 1366053007495 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1366053007496 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1366053007497 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1366053007498 active site 1366053007499 Int/Topo IB signature motif; other site 1366053007500 glutamate racemase; Provisional; Region: PRK00865 1366053007501 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1366053007502 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1366053007503 Chorismate lyase; Region: Chor_lyase; cl01230 1366053007504 uridine phosphorylase; Provisional; Region: PRK11178 1366053007505 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1366053007506 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 1366053007507 motif II; other site 1366053007508 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1366053007509 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 1366053007510 dimer interface [polypeptide binding]; other site 1366053007511 motif 1; other site 1366053007512 active site 1366053007513 motif 2; other site 1366053007514 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1366053007515 putative deacylase active site [active] 1366053007516 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 1366053007517 active site 1366053007518 motif 3; other site 1366053007519 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 1366053007520 anticodon binding site; other site 1366053007521 heat shock protein 90; Provisional; Region: PRK05218 1366053007522 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 1366053007523 ATP binding site [chemical binding]; other site 1366053007524 Mg2+ binding site [ion binding]; other site 1366053007525 G-X-G motif; other site 1366053007526 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1366053007527 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 1366053007528 oligomeric interface; other site 1366053007529 putative active site [active] 1366053007530 homodimer interface [polypeptide binding]; other site 1366053007531 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1366053007532 Pathogenicity locus; Region: Cdd1; pfam11731 1366053007533 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 1366053007534 generic binding surface II; other site 1366053007535 ssDNA binding site; other site 1366053007536 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 1366053007537 ATP binding site [chemical binding]; other site 1366053007538 putative Mg++ binding site [ion binding]; other site 1366053007539 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 1366053007540 nucleotide binding region [chemical binding]; other site 1366053007541 ATP-binding site [chemical binding]; other site 1366053007542 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1366053007543 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1366053007544 active site 1366053007545 substrate binding site [chemical binding]; other site 1366053007546 metal binding site [ion binding]; metal-binding site 1366053007547 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1366053007548 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 1366053007549 P-loop; other site 1366053007550 Magnesium ion binding site [ion binding]; other site 1366053007551 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 1366053007552 Magnesium ion binding site [ion binding]; other site 1366053007553 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1366053007554 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1366053007555 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1366053007556 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1366053007557 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1366053007558 active site 1366053007559 homodimer interface [polypeptide binding]; other site 1366053007560 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1366053007561 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1366053007562 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1366053007563 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1366053007564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1366053007565 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1366053007566 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1366053007567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1366053007568 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1366053007569 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1366053007570 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1366053007571 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1366053007572 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1366053007573 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1366053007574 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1366053007575 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1366053007576 Walker A/P-loop; other site 1366053007577 ATP binding site [chemical binding]; other site 1366053007578 Q-loop/lid; other site 1366053007579 ABC transporter signature motif; other site 1366053007580 Walker B; other site 1366053007581 D-loop; other site 1366053007582 H-loop/switch region; other site 1366053007583 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1366053007584 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1366053007585 putative metal binding site [ion binding]; other site