-- dump date 20140620_032141 -- class Genbank::misc_feature -- table misc_feature_note -- id note 338969000001 hypothetical protein; Provisional; Region: PRK10436 338969000002 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 338969000003 Walker A motif; other site 338969000004 ATP binding site [chemical binding]; other site 338969000005 Walker B motif; other site 338969000006 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 338969000007 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 338969000008 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 338969000009 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 338969000010 VirB7 interaction site; other site 338969000011 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 338969000012 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 338969000013 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 338969000014 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 338969000015 VirB7 interaction site; other site 338969000016 VirB8 protein; Region: VirB8; pfam04335 338969000017 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 338969000018 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 338969000019 Walker A motif; other site 338969000020 ATP binding site [chemical binding]; other site 338969000021 Walker B motif; other site 338969000022 arginine finger; other site 338969000023 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 338969000024 Walker A motif; other site 338969000025 ATP binding site [chemical binding]; other site 338969000026 Walker B motif; other site 338969000027 arginine finger; other site 338969000028 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 338969000029 conserved hypothetical protein; Region: TIGR02231 338969000030 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 338969000031 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 338969000032 TrbC/VIRB2 family; Region: TrbC; pfam04956 338969000033 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 338969000034 Walker A motif; other site 338969000035 ATP binding site [chemical binding]; other site 338969000036 Walker B motif; other site 338969000037 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 338969000038 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 338969000039 AAA-like domain; Region: AAA_10; pfam12846 338969000040 Putative helicase; Region: TraI_2; pfam07514 338969000041 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 338969000042 salt bridge; other site 338969000043 non-specific DNA binding site [nucleotide binding]; other site 338969000044 sequence-specific DNA binding site [nucleotide binding]; other site 338969000045 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 338969000046 Toprim domain; Region: Toprim_3; pfam13362 338969000047 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 338969000048 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 338969000049 metal ion-dependent adhesion site (MIDAS); other site 338969000050 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 338969000051 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 338969000052 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 338969000053 dimer interface [polypeptide binding]; other site 338969000054 ssDNA binding site [nucleotide binding]; other site 338969000055 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338969000056 MoxR-like ATPases [General function prediction only]; Region: COG0714 338969000057 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; cl18944 338969000058 Walker A motif; other site 338969000059 ATP binding site [chemical binding]; other site 338969000060 Walker B motif; other site 338969000061 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338969000062 Part of AAA domain; Region: AAA_19; pfam13245 338969000063 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 338969000064 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 338969000065 ParB-like nuclease domain; Region: ParBc; pfam02195 338969000066 ParA-like protein; Provisional; Region: PHA02518 338969000067 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 338969000068 P-loop; other site 338969000069 Magnesium ion binding site [ion binding]; other site 338969000070 Helix-turn-helix domain; Region: HTH_36; pfam13730 338969000071 Replication initiator protein A; Region: RPA; cl19398 338969000072 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 338969000073 hypothetical protein; Region: PHA00684 338969000074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 338969000075 AAA domain; Region: AAA_23; pfam13476 338969000076 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969000077 ABC transporter signature motif; other site 338969000078 Walker B; other site 338969000079 D-loop; other site 338969000080 H-loop/switch region; other site 338969000081 Replication initiator protein A; Region: RPA; cl19398 338969000082 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338969000083 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 338969000084 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338969000085 helicase superfamily c-terminal domain; Region: HELICc; smart00490 338969000086 DNA repair protein RadA; Provisional; Region: PRK11823 338969000087 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 338969000088 Walker A motif; other site 338969000089 ATP binding site [chemical binding]; other site 338969000090 Walker B motif; other site 338969000091 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 338969000092 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 338969000093 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 338969000094 ATP binding site [chemical binding]; other site 338969000095 Mg2+ binding site [ion binding]; other site 338969000096 G-X-G motif; other site 338969000097 DNA polymerase III subunit beta; Validated; Region: PRK05643 338969000098 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 338969000099 putative DNA binding surface [nucleotide binding]; other site 338969000100 dimer interface [polypeptide binding]; other site 338969000101 beta-clamp/clamp loader binding surface; other site 338969000102 beta-clamp/translesion DNA polymerase binding surface; other site 338969000103 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 338969000104 Protein of unknown function (DUF342); Region: DUF342; cl19219 338969000105 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 338969000106 Protein of unknown function (DUF342); Region: DUF342; cl19219 338969000107 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 338969000108 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 338969000109 active site 338969000110 substrate binding site [chemical binding]; other site 338969000111 Mg2+ binding site [ion binding]; other site 338969000112 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 338969000113 Active Sites [active] 338969000114 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 338969000115 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338969000116 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 338969000117 Fungal specific transcription factor domain; Region: Fungal_trans_2; pfam11951 338969000118 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 338969000119 active site 338969000120 DNA binding site [nucleotide binding] 338969000121 Int/Topo IB signature motif; other site 338969000122 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 338969000123 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 338969000124 Ligand Binding Site [chemical binding]; other site 338969000125 Methyltransferase domain; Region: Methyltransf_23; pfam13489 338969000126 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 338969000127 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 338969000128 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 338969000129 active site 338969000130 DNA binding site [nucleotide binding] 338969000131 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 338969000132 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 338969000133 Catalytic site [active] 338969000134 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 338969000135 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 338969000136 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 338969000137 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 338969000138 CRISPR/Cas system-associated RAMP superfamily protein Csf3; Region: Csf3_U; cd09707 338969000139 CRISPR/Cas system-associated RAMP superfamily protein Csf2; Region: Csf2_U; cd09706 338969000140 CRISPR/Cas system-associated protein Csf1; Region: Csf1_U; cd09705 338969000141 CRISPR type AFERR-associated DEAD/DEAH-box helicase Csf4; Region: cas_csf4; TIGR03117 338969000142 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 338969000143 Initiator Replication protein; Region: Rep_3; pfam01051 338969000144 WGR domain of bacterial DNA ligases; Region: WGR_DNA_ligase; cd07998 338969000145 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 338969000146 active site 338969000147 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 338969000148 S-adenosylmethionine binding site [chemical binding]; other site 338969000149 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 338969000150 ERCC4 domain; Region: ERCC4; pfam02732 338969000151 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 338969000152 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 338969000153 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 338969000154 active site 338969000155 catalytic residues [active] 338969000156 Int/Topo IB signature motif; other site 338969000157 DNA binding site [nucleotide binding] 338969000158 thymidine kinase; Provisional; Region: PRK04296 338969000159 PAS domain; Region: PAS_9; pfam13426 338969000160 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969000161 putative active site [active] 338969000162 heme pocket [chemical binding]; other site 338969000163 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969000164 PAS domain; Region: PAS_9; pfam13426 338969000165 putative active site [active] 338969000166 heme pocket [chemical binding]; other site 338969000167 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969000168 metal binding site [ion binding]; metal-binding site 338969000169 active site 338969000170 I-site; other site 338969000171 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969000172 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338969000173 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 338969000174 active site 338969000175 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 338969000176 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 338969000177 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338969000178 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338969000179 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 338969000180 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338969000181 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 338969000182 Walker A motif; other site 338969000183 ATP binding site [chemical binding]; other site 338969000184 Walker B motif; other site 338969000185 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 338969000186 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338969000187 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 338969000188 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338969000189 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 338969000190 active site 338969000191 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969000192 phosphorylation site [posttranslational modification] 338969000193 intermolecular recognition site; other site 338969000194 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 338969000195 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; cl17196 338969000196 ATP binding site [chemical binding]; other site 338969000197 substrate interface [chemical binding]; other site 338969000198 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 338969000199 PRTRC system protein A; Region: PRTRC_A; TIGR03735 338969000200 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 338969000201 PRTRC system protein B; Region: PRTRC_B; TIGR03737 338969000202 PRTRC system protein F; Region: PRTRC_F; TIGR03742 338969000203 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 338969000204 PRTRC system protein E; Region: PRTRC_E; TIGR03741 338969000205 ParB-like nuclease domain; Region: ParB; smart00470 338969000206 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 338969000207 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 338969000208 active site 338969000209 phosphorylation site [posttranslational modification] 338969000210 intermolecular recognition site; other site 338969000211 dimerization interface [polypeptide binding]; other site 338969000212 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 338969000213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969000214 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 338969000215 phosphorylation site [posttranslational modification] 338969000216 dimer interface [polypeptide binding]; other site 338969000217 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 338969000218 ATP binding site [chemical binding]; other site 338969000219 Mg2+ binding site [ion binding]; other site 338969000220 G-X-G motif; other site 338969000221 UbiA family of prenyltransferases (PTases); Region: PT_UbiA; cl00337 338969000222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969000223 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 338969000224 dimer interface [polypeptide binding]; other site 338969000225 phosphorylation site [posttranslational modification] 338969000226 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 338969000227 ATP binding site [chemical binding]; other site 338969000228 Mg2+ binding site [ion binding]; other site 338969000229 G-X-G motif; other site 338969000230 lipid-transfer protein; Provisional; Region: PRK08256 338969000231 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 338969000232 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 338969000233 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 338969000234 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338969000235 transcriptional repressor DicA; Reviewed; Region: PRK09706 338969000236 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338969000237 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338969000238 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 338969000239 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 338969000240 non-specific DNA binding site [nucleotide binding]; other site 338969000241 salt bridge; other site 338969000242 sequence-specific DNA binding site [nucleotide binding]; other site 338969000243 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 338969000244 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 338969000245 active site 338969000246 DNA binding site [nucleotide binding] 338969000247 Int/Topo IB signature motif; other site 338969000248 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 338969000249 VRR-NUC domain; Region: VRR_NUC; pfam08774 338969000250 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338969000251 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 338969000252 ATP binding site [chemical binding]; other site 338969000253 putative Mg++ binding site [ion binding]; other site 338969000254 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 338969000255 nucleotide binding region [chemical binding]; other site 338969000256 ATP-binding site [chemical binding]; other site 338969000257 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 338969000258 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 338969000259 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 338969000260 Mrr N-terminal domain; Region: Mrr_N; pfam14338 338969000261 DNA methylase; Region: N6_N4_Mtase; pfam01555 338969000262 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 338969000263 RES domain; Region: RES; pfam08808 338969000264 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 338969000265 active site 338969000266 catalytic residues [active] 338969000267 DNA binding site [nucleotide binding] 338969000268 Int/Topo IB signature motif; other site 338969000269 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 338969000270 Mg binding site [ion binding]; other site 338969000271 nucleotide binding site [chemical binding]; other site 338969000272 putative protofilament interface [polypeptide binding]; other site 338969000273 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 338969000274 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338969000275 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969000276 catalytic residue [active] 338969000277 conjugal transfer protein TraB; Provisional; Region: PRK13825 338969000278 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 338969000279 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 338969000280 Type II secretion system (T2SS), protein J; Region: T2SJ; cl19722 338969000281 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 338969000282 Walker A motif; other site 338969000283 ATP binding site [chemical binding]; other site 338969000284 Walker B motif; other site 338969000285 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 338969000286 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 338969000287 DnaA N-terminal domain; Region: DnaA_N; pfam11638 338969000288 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 338969000289 Walker A motif; other site 338969000290 ATP binding site [chemical binding]; other site 338969000291 Walker B motif; other site 338969000292 arginine finger; other site 338969000293 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 338969000294 DnaA box-binding interface [nucleotide binding]; other site 338969000295 DNA polymerase III subunit beta; Validated; Region: PRK05643 338969000296 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 338969000297 putative DNA binding surface [nucleotide binding]; other site 338969000298 dimer interface [polypeptide binding]; other site 338969000299 beta-clamp/clamp loader binding surface; other site 338969000300 beta-clamp/translesion DNA polymerase binding surface; other site 338969000301 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 338969000302 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 338969000303 ATP binding site [chemical binding]; other site 338969000304 Mg2+ binding site [ion binding]; other site 338969000305 G-X-G motif; other site 338969000306 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 338969000307 anchoring element; other site 338969000308 dimer interface [polypeptide binding]; other site 338969000309 ATP binding site [chemical binding]; other site 338969000310 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 338969000311 active site 338969000312 putative metal-binding site [ion binding]; other site 338969000313 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 338969000314 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 338969000315 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 338969000316 FOG: CBS domain [General function prediction only]; Region: COG0517 338969000317 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 338969000318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969000319 metal binding site [ion binding]; metal-binding site 338969000320 active site 338969000321 I-site; other site 338969000322 NnrU protein; Region: NnrU; pfam07298 338969000323 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 338969000324 CoA binding domain; Region: CoA_binding_2; pfam13380 338969000325 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 338969000326 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 338969000327 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 338969000328 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 338969000329 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 338969000330 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 338969000331 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338969000332 LTXXQ motif family protein; Region: LTXXQ; pfam07813 338969000333 dimer interface [polypeptide binding]; other site 338969000334 recombination associated protein; Reviewed; Region: rdgC; PRK00321 338969000335 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 338969000336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969000337 DNA-binding site [nucleotide binding]; DNA binding site 338969000338 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 338969000339 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 338969000340 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 338969000341 tetramer interface [polypeptide binding]; other site 338969000342 active site 338969000343 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 338969000344 anion transporter; Region: dass; TIGR00785 338969000345 transmembrane helices; other site 338969000346 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969000347 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969000348 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 338969000349 dimer interface [polypeptide binding]; other site 338969000350 active site 338969000351 metal binding site [ion binding]; metal-binding site 338969000352 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 338969000353 Prostaglandin dehydrogenases; Region: PGDH; cd05288 338969000354 NAD(P) binding site [chemical binding]; other site 338969000355 substrate binding site [chemical binding]; other site 338969000356 dimer interface [polypeptide binding]; other site 338969000357 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 338969000358 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 338969000359 potential catalytic triad [active] 338969000360 conserved cys residue [active] 338969000361 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 338969000362 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 338969000363 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969000364 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 338969000365 ligand binding site [chemical binding]; other site 338969000366 flexible hinge region; other site 338969000367 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969000368 putative switch regulator; other site 338969000369 non-specific DNA interactions [nucleotide binding]; other site 338969000370 DNA binding site [nucleotide binding] 338969000371 sequence specific DNA binding site [nucleotide binding]; other site 338969000372 putative cAMP binding site [chemical binding]; other site 338969000373 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 338969000374 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 338969000375 DNA binding residues [nucleotide binding] 338969000376 dimer interface [polypeptide binding]; other site 338969000377 copper binding site [ion binding]; other site 338969000378 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338969000379 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 338969000380 metal-binding site [ion binding] 338969000381 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338969000382 Soluble P-type ATPase [General function prediction only]; Region: COG4087 338969000383 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 338969000384 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 338969000385 trimer interface [polypeptide binding]; other site 338969000386 putative Zn binding site [ion binding]; other site 338969000387 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 338969000388 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 338969000389 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 338969000390 ATP binding site [chemical binding]; other site 338969000391 putative Mg++ binding site [ion binding]; other site 338969000392 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 338969000393 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 338969000394 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338969000395 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 338969000396 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338969000397 Protein of unknown function (DUF1016); Region: DUF1016; cl19557 338969000398 HsdM N-terminal domain; Region: HsdM_N; pfam12161 338969000399 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 338969000400 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338969000401 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 338969000402 cell division topological specificity factor MinE; Provisional; Region: PRK13989 338969000403 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 338969000404 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 338969000405 P-loop; other site 338969000406 ADP binding residues [chemical binding]; other site 338969000407 Switch I; other site 338969000408 Switch II; other site 338969000409 septum formation inhibitor; Reviewed; Region: PRK01973 338969000410 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 338969000411 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 338969000412 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 338969000413 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 338969000414 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 338969000415 binding surface 338969000416 TPR motif; other site 338969000417 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 338969000418 TPR repeat; Region: TPR_11; pfam13414 338969000419 binding surface 338969000420 TPR motif; other site 338969000421 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 338969000422 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 338969000423 catalytic residues [active] 338969000424 central insert; other site 338969000425 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 338969000426 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 338969000427 Heme exporter protein D (CcmD); Region: CcmD; cl11475 338969000428 heme exporter protein CcmC; Region: ccmC; TIGR01191 338969000429 heme exporter protein CcmB; Region: ccmB; TIGR01190 338969000430 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 338969000431 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969000432 Walker A/P-loop; other site 338969000433 ATP binding site [chemical binding]; other site 338969000434 Q-loop/lid; other site 338969000435 ABC transporter signature motif; other site 338969000436 Walker B; other site 338969000437 D-loop; other site 338969000438 H-loop/switch region; other site 338969000439 glutathionine S-transferase; Provisional; Region: PRK10542 338969000440 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 338969000441 C-terminal domain interface [polypeptide binding]; other site 338969000442 GSH binding site (G-site) [chemical binding]; other site 338969000443 dimer interface [polypeptide binding]; other site 338969000444 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 338969000445 dimer interface [polypeptide binding]; other site 338969000446 N-terminal domain interface [polypeptide binding]; other site 338969000447 substrate binding pocket (H-site) [chemical binding]; other site 338969000448 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 338969000449 NAD(P) binding site [chemical binding]; other site 338969000450 catalytic residues [active] 338969000451 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 338969000452 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 338969000453 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 338969000454 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 338969000455 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 338969000456 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338969000457 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 338969000458 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 338969000459 P-loop; other site 338969000460 Magnesium ion binding site [ion binding]; other site 338969000461 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 338969000462 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 338969000463 ParB-like nuclease domain; Region: ParB; smart00470 338969000464 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 338969000465 S-adenosylmethionine binding site [chemical binding]; other site 338969000466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969000467 Zn2+ binding site [ion binding]; other site 338969000468 Mg2+ binding site [ion binding]; other site 338969000469 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 338969000470 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 338969000471 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 338969000472 binding surface 338969000473 TPR motif; other site 338969000474 TPR repeat; Region: TPR_11; pfam13414 338969000475 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 338969000476 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 338969000477 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969000478 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 338969000479 ligand binding site [chemical binding]; other site 338969000480 flexible hinge region; other site 338969000481 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969000482 putative switch regulator; other site 338969000483 non-specific DNA interactions [nucleotide binding]; other site 338969000484 DNA binding site [nucleotide binding] 338969000485 sequence specific DNA binding site [nucleotide binding]; other site 338969000486 putative cAMP binding site [chemical binding]; other site 338969000487 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 338969000488 CoenzymeA binding site [chemical binding]; other site 338969000489 subunit interaction site [polypeptide binding]; other site 338969000490 PHB binding site; other site 338969000491 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969000492 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 338969000493 active site 338969000494 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 338969000495 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 338969000496 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 338969000497 G1 box; other site 338969000498 GTP/Mg2+ binding site [chemical binding]; other site 338969000499 Switch I region; other site 338969000500 G2 box; other site 338969000501 G3 box; other site 338969000502 Switch II region; other site 338969000503 G4 box; other site 338969000504 G5 box; other site 338969000505 Nucleoside recognition; Region: Gate; pfam07670 338969000506 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 338969000507 Nucleoside recognition; Region: Gate; pfam07670 338969000508 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 338969000509 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 338969000510 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 338969000511 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 338969000512 catalytic residues [active] 338969000513 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 338969000514 Sulfate transporter family; Region: Sulfate_transp; cl19250 338969000515 uracil-xanthine permease; Region: ncs2; TIGR00801 338969000516 BON domain; Region: BON; pfam04972 338969000517 BON domain; Region: BON; pfam04972 338969000518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 338969000519 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 338969000520 Competence-damaged protein; Region: CinA; pfam02464 338969000521 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 338969000522 tetramer interfaces [polypeptide binding]; other site 338969000523 binuclear metal-binding site [ion binding]; other site 338969000524 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 338969000525 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 338969000526 putative active site [active] 338969000527 catalytic site [active] 338969000528 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 338969000529 putative active site [active] 338969000530 catalytic site [active] 338969000531 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 338969000532 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 338969000533 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 338969000534 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 338969000535 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 338969000536 FAD binding pocket [chemical binding]; other site 338969000537 FAD binding motif [chemical binding]; other site 338969000538 phosphate binding motif [ion binding]; other site 338969000539 beta-alpha-beta structure motif; other site 338969000540 NAD binding pocket [chemical binding]; other site 338969000541 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 338969000542 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 338969000543 Substrate binding site; other site 338969000544 metal-binding site 338969000545 proline aminopeptidase P II; Provisional; Region: PRK10879 338969000546 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 338969000547 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 338969000548 active site 338969000549 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 338969000550 catalytic residues [active] 338969000551 pyruvate phosphate dikinase; Provisional; Region: PRK09279 338969000552 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338969000553 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 338969000554 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 338969000555 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969000556 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 338969000557 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 338969000558 Rubrerythrin [Energy production and conversion]; Region: COG1592 338969000559 binuclear metal center [ion binding]; other site 338969000560 Rubredoxin [Energy production and conversion]; Region: COG1773 338969000561 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 338969000562 iron binding site [ion binding]; other site 338969000563 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 338969000564 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 338969000565 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969000566 NAD(P) binding site [chemical binding]; other site 338969000567 malic enzyme; Reviewed; Region: PRK12862 338969000568 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 338969000569 Malic enzyme, N-terminal domain; Region: malic; pfam00390 338969000570 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 338969000571 putative NAD(P) binding site [chemical binding]; other site 338969000572 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 338969000573 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 338969000574 active site 338969000575 Barstar (barnase inhibitor); Region: Barstar; pfam01337 338969000576 RNAase interaction site [polypeptide binding]; other site 338969000577 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 338969000578 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 338969000579 SurA N-terminal domain; Region: SurA_N; pfam09312 338969000580 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 338969000581 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 338969000582 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 338969000583 OstA-like protein; Region: OstA; cl00844 338969000584 Organic solvent tolerance protein; Region: OstA_C; pfam04453 338969000585 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 338969000586 Phosphotransferase enzyme family; Region: APH; pfam01636 338969000587 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 338969000588 SnoaL-like domain; Region: SnoaL_3; pfam13474 338969000589 LemA family; Region: LemA; pfam04011 338969000590 TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; Region: TPM; cl01535 338969000591 TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; Region: TPM; pfam04536 338969000592 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 338969000593 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 338969000594 gamma subunit interface [polypeptide binding]; other site 338969000595 epsilon subunit interface [polypeptide binding]; other site 338969000596 LBP interface [polypeptide binding]; other site 338969000597 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 338969000598 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338969000599 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 338969000600 alpha subunit interaction interface [polypeptide binding]; other site 338969000601 Walker A motif; other site 338969000602 ATP binding site [chemical binding]; other site 338969000603 Walker B motif; other site 338969000604 inhibitor binding site; inhibition site 338969000605 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338969000606 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 338969000607 core domain interface [polypeptide binding]; other site 338969000608 delta subunit interface [polypeptide binding]; other site 338969000609 epsilon subunit interface [polypeptide binding]; other site 338969000610 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 338969000611 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338969000612 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 338969000613 beta subunit interaction interface [polypeptide binding]; other site 338969000614 Walker A motif; other site 338969000615 ATP binding site [chemical binding]; other site 338969000616 Walker B motif; other site 338969000617 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338969000618 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 338969000619 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 338969000620 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 338969000621 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 338969000622 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 338969000623 ATP synthase I chain; Region: ATP_synt_I; pfam03899 338969000624 Protein of unknown function, DUF482; Region: DUF482; pfam04339 338969000625 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 338969000626 catalytic residues [active] 338969000627 PAS fold; Region: PAS_7; pfam12860 338969000628 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969000629 metal binding site [ion binding]; metal-binding site 338969000630 active site 338969000631 I-site; other site 338969000632 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 338969000633 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338969000634 Walker A motif; other site 338969000635 ATP binding site [chemical binding]; other site 338969000636 Walker B motif; other site 338969000637 arginine finger; other site 338969000638 Peptidase family M41; Region: Peptidase_M41; pfam01434 338969000639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969000640 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 338969000641 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 338969000642 dimerization interface [polypeptide binding]; other site 338969000643 substrate binding pocket [chemical binding]; other site 338969000644 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969000645 PAS domain; Region: PAS_9; pfam13426 338969000646 putative active site [active] 338969000647 heme pocket [chemical binding]; other site 338969000648 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969000649 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969000650 dimer interface [polypeptide binding]; other site 338969000651 putative CheW interface [polypeptide binding]; other site 338969000652 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 338969000653 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 338969000654 substrate binding site [chemical binding]; other site 338969000655 catalytic Zn binding site [ion binding]; other site 338969000656 NAD binding site [chemical binding]; other site 338969000657 structural Zn binding site [ion binding]; other site 338969000658 dimer interface [polypeptide binding]; other site 338969000659 Predicted esterase [General function prediction only]; Region: COG0627 338969000660 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 338969000661 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 338969000662 TM-ABC transporter signature motif; other site 338969000663 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 338969000664 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 338969000665 Walker A/P-loop; other site 338969000666 ATP binding site [chemical binding]; other site 338969000667 Q-loop/lid; other site 338969000668 ABC transporter signature motif; other site 338969000669 Walker B; other site 338969000670 D-loop; other site 338969000671 H-loop/switch region; other site 338969000672 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 338969000673 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 338969000674 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 338969000675 putative ligand binding site [chemical binding]; other site 338969000676 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 338969000677 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 338969000678 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 338969000679 carboxyltransferase (CT) interaction site; other site 338969000680 biotinylation site [posttranslational modification]; other site 338969000681 hypothetical protein; Provisional; Region: PRK12569 338969000682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969000683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969000684 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 338969000685 putative substrate binding pocket [chemical binding]; other site 338969000686 dimerization interface [polypeptide binding]; other site 338969000687 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 338969000688 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 338969000689 SCP-2 sterol transfer family; Region: SCP2; cl01225 338969000690 putative protease; Provisional; Region: PRK15447 338969000691 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 338969000692 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 338969000693 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 338969000694 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 338969000695 trimer interface [polypeptide binding]; other site 338969000696 active site 338969000697 substrate binding site [chemical binding]; other site 338969000698 CoA binding site [chemical binding]; other site 338969000699 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 338969000700 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 338969000701 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 338969000702 active site 338969000703 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 338969000704 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969000705 Walker A/P-loop; other site 338969000706 ATP binding site [chemical binding]; other site 338969000707 Q-loop/lid; other site 338969000708 ABC transporter signature motif; other site 338969000709 Walker B; other site 338969000710 D-loop; other site 338969000711 H-loop/switch region; other site 338969000712 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 338969000713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969000714 Walker A/P-loop; other site 338969000715 ATP binding site [chemical binding]; other site 338969000716 Q-loop/lid; other site 338969000717 ABC transporter signature motif; other site 338969000718 Walker B; other site 338969000719 D-loop; other site 338969000720 H-loop/switch region; other site 338969000721 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969000722 Phosphonate metabolizm protein PhnJ; Region: PhnJ; pfam06007 338969000723 Bacterial phosphonate metabolizm protein (PhnI); Region: PhnI; pfam05861 338969000724 Bacterial phosphonate metabolizm protein (PhnH); Region: PhnH; pfam05845 338969000725 Phosphonate metabolizm protein PhnG; Region: PhnG; pfam06754 338969000726 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 338969000727 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969000728 DNA-binding site [nucleotide binding]; DNA binding site 338969000729 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 338969000730 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 338969000731 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 338969000732 active site 338969000733 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 338969000734 active site 338969000735 dimer interface [polypeptide binding]; other site 338969000736 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 338969000737 HEAT repeats; Region: HEAT_2; pfam13646 338969000738 Predicted transcriptional regulator [Transcription]; Region: COG2378 338969000739 HTH domain; Region: HTH_11; pfam08279 338969000740 WYL domain; Region: WYL; pfam13280 338969000741 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 338969000742 DinB family; Region: DinB; cl17821 338969000743 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 338969000744 tetramer interface [polypeptide binding]; other site 338969000745 active site 338969000746 catalytic triad [active] 338969000747 dimer interface [polypeptide binding]; other site 338969000748 allantoate amidohydrolase; Reviewed; Region: PRK12893 338969000749 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 338969000750 active site 338969000751 metal binding site [ion binding]; metal-binding site 338969000752 dimer interface [polypeptide binding]; other site 338969000753 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 338969000754 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969000755 catalytic residue [active] 338969000756 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 338969000757 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 338969000758 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 338969000759 putative active site [active] 338969000760 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 338969000761 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969000762 substrate binding pocket [chemical binding]; other site 338969000763 membrane-bound complex binding site; other site 338969000764 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969000765 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 338969000766 dimer interface [polypeptide binding]; other site 338969000767 conserved gate region; other site 338969000768 putative PBP binding loops; other site 338969000769 ABC-ATPase subunit interface; other site 338969000770 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969000771 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 338969000772 dimer interface [polypeptide binding]; other site 338969000773 conserved gate region; other site 338969000774 putative PBP binding loops; other site 338969000775 ABC-ATPase subunit interface; other site 338969000776 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969000777 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969000778 Walker A/P-loop; other site 338969000779 ATP binding site [chemical binding]; other site 338969000780 Q-loop/lid; other site 338969000781 ABC transporter signature motif; other site 338969000782 Walker B; other site 338969000783 D-loop; other site 338969000784 H-loop/switch region; other site 338969000785 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 338969000786 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 338969000787 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 338969000788 active site 338969000789 metal binding site [ion binding]; metal-binding site 338969000790 dimer interface [polypeptide binding]; other site 338969000791 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 338969000792 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 338969000793 metal binding site [ion binding]; metal-binding site 338969000794 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 338969000795 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 338969000796 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338969000797 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969000798 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 338969000799 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338969000800 Walker A/P-loop; other site 338969000801 ATP binding site [chemical binding]; other site 338969000802 Q-loop/lid; other site 338969000803 ABC transporter signature motif; other site 338969000804 Walker B; other site 338969000805 D-loop; other site 338969000806 H-loop/switch region; other site 338969000807 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338969000808 Walker A/P-loop; other site 338969000809 ATP binding site [chemical binding]; other site 338969000810 Q-loop/lid; other site 338969000811 ABC transporter signature motif; other site 338969000812 Walker B; other site 338969000813 D-loop; other site 338969000814 H-loop/switch region; other site 338969000815 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 338969000816 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 338969000817 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 338969000818 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 338969000819 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 338969000820 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 338969000821 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 338969000822 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 338969000823 AAA domain; Region: AAA_17; cl19128 338969000824 AAA domain; Region: AAA_33; pfam13671 338969000825 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969000826 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; cl17220 338969000827 putative DNA binding site [nucleotide binding]; other site 338969000828 putative Zn2+ binding site [ion binding]; other site 338969000829 YcfA-like protein; Region: YcfA; pfam07927 338969000830 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 338969000831 HicB family; Region: HicB; pfam05534 338969000832 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 338969000833 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969000834 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969000835 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 338969000836 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 338969000837 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 338969000838 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 338969000839 dimer interface [polypeptide binding]; other site 338969000840 conserved gate region; other site 338969000841 putative PBP binding loops; other site 338969000842 ABC-ATPase subunit interface; other site 338969000843 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 338969000844 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 338969000845 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 338969000846 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 338969000847 Walker A/P-loop; other site 338969000848 ATP binding site [chemical binding]; other site 338969000849 Q-loop/lid; other site 338969000850 ABC transporter signature motif; other site 338969000851 Walker B; other site 338969000852 D-loop; other site 338969000853 H-loop/switch region; other site 338969000854 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969000855 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 338969000856 putative substrate translocation pore; other site 338969000857 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 338969000858 Fe-S cluster binding site [ion binding]; other site 338969000859 active site 338969000860 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 338969000861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969000862 Coenzyme A binding pocket [chemical binding]; other site 338969000863 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 338969000864 Glycoprotease family; Region: Peptidase_M22; pfam00814 338969000865 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969000866 EamA-like transporter family; Region: EamA; pfam00892 338969000867 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 338969000868 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 338969000869 Uncharacterized conserved protein [Function unknown]; Region: COG4095 338969000870 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 338969000871 active site 338969000872 oxyanion hole [active] 338969000873 Triacylglycerol lipase-like subfamily of the 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: Triacylglycerol_lipase_like; cd01847 338969000874 catalytic triad [active] 338969000875 OmpW family; Region: OmpW; cl17427 338969000876 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 338969000877 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 338969000878 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 338969000879 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969000880 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 338969000881 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 338969000882 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 338969000883 Tetratricopeptide repeat; Region: TPR_20; pfam14561 338969000884 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 338969000885 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 338969000886 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 338969000887 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 338969000888 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 338969000889 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338969000890 Cysteine-rich domain; Region: CCG; pfam02754 338969000891 Cysteine-rich domain; Region: CCG; pfam02754 338969000892 Transcriptional regulators [Transcription]; Region: FadR; COG2186 338969000893 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969000894 DNA-binding site [nucleotide binding]; DNA binding site 338969000895 FCD domain; Region: FCD; pfam07729 338969000896 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 338969000897 ATP binding site [chemical binding]; other site 338969000898 active site 338969000899 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 338969000900 substrate binding site [chemical binding]; other site 338969000901 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 338969000902 intersubunit interface [polypeptide binding]; other site 338969000903 active site 338969000904 zinc binding site [ion binding]; other site 338969000905 Na+ binding site [ion binding]; other site 338969000906 pyruvate kinase; Provisional; Region: PRK05826 338969000907 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; cd00288 338969000908 domain interfaces; other site 338969000909 active site 338969000910 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338969000911 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338969000912 ligand binding site [chemical binding]; other site 338969000913 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 338969000914 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 338969000915 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 338969000916 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969000917 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969000918 Walker A/P-loop; other site 338969000919 ATP binding site [chemical binding]; other site 338969000920 Q-loop/lid; other site 338969000921 ABC transporter signature motif; other site 338969000922 Walker B; other site 338969000923 D-loop; other site 338969000924 H-loop/switch region; other site 338969000925 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969000926 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969000927 Walker A/P-loop; other site 338969000928 ATP binding site [chemical binding]; other site 338969000929 Q-loop/lid; other site 338969000930 ABC transporter signature motif; other site 338969000931 Walker B; other site 338969000932 D-loop; other site 338969000933 H-loop/switch region; other site 338969000934 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969000935 TM-ABC transporter signature motif; other site 338969000936 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969000937 TM-ABC transporter signature motif; other site 338969000938 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 338969000939 putative ligand binding site [chemical binding]; other site 338969000940 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969000941 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969000942 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969000943 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 338969000944 acyl-activating enzyme (AAE) consensus motif; other site 338969000945 AMP binding site [chemical binding]; other site 338969000946 active site 338969000947 CoA binding site [chemical binding]; other site 338969000948 aldehyde dehydrogenase; Provisional; Region: PRK11903 338969000949 NAD(P) binding site [chemical binding]; other site 338969000950 catalytic residues [active] 338969000951 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 338969000952 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 338969000953 non-specific DNA binding site [nucleotide binding]; other site 338969000954 salt bridge; other site 338969000955 sequence-specific DNA binding site [nucleotide binding]; other site 338969000956 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 338969000957 ADP binding site [chemical binding]; other site 338969000958 magnesium binding site [ion binding]; other site 338969000959 putative shikimate binding site; other site 338969000960 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 338969000961 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 338969000962 substrate binding site [chemical binding]; other site 338969000963 oxyanion hole (OAH) forming residues; other site 338969000964 trimer interface [polypeptide binding]; other site 338969000965 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 338969000966 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 338969000967 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; cl19102 338969000968 4Fe-4S binding domain; Region: Fer4; pfam00037 338969000969 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 338969000970 FAD binding pocket [chemical binding]; other site 338969000971 conserved FAD binding motif [chemical binding]; other site 338969000972 phosphate binding motif [ion binding]; other site 338969000973 beta-alpha-beta structure motif; other site 338969000974 NAD binding pocket [chemical binding]; other site 338969000975 enoyl-CoA hydratase; Provisional; Region: PRK05995 338969000976 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 338969000977 substrate binding site [chemical binding]; other site 338969000978 oxyanion hole (OAH) forming residues; other site 338969000979 trimer interface [polypeptide binding]; other site 338969000980 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 338969000981 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 338969000982 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969000983 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969000984 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 338969000985 putative active site [active] 338969000986 putative catalytic site [active] 338969000987 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 338969000988 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969000989 dimer interface [polypeptide binding]; other site 338969000990 active site 338969000991 Hemerythrin-like domain; Region: Hr-like; cd12108 338969000992 Fe binding site [ion binding]; other site 338969000993 benzoyl-CoA oxygenase, B subunit; Region: benzo_boxB; TIGR03225 338969000994 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 338969000995 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 338969000996 non-specific DNA binding site [nucleotide binding]; other site 338969000997 salt bridge; other site 338969000998 sequence-specific DNA binding site [nucleotide binding]; other site 338969000999 Cupin domain; Region: Cupin_2; pfam07883 338969001000 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 338969001001 FAD dependent oxidoreductase; Region: DAO; pfam01266 338969001002 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 338969001003 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969001004 substrate binding pocket [chemical binding]; other site 338969001005 membrane-bound complex binding site; other site 338969001006 hinge residues; other site 338969001007 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969001008 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 338969001009 dimer interface [polypeptide binding]; other site 338969001010 conserved gate region; other site 338969001011 putative PBP binding loops; other site 338969001012 ABC-ATPase subunit interface; other site 338969001013 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969001014 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969001015 Walker A/P-loop; other site 338969001016 ATP binding site [chemical binding]; other site 338969001017 Q-loop/lid; other site 338969001018 ABC transporter signature motif; other site 338969001019 Walker B; other site 338969001020 D-loop; other site 338969001021 H-loop/switch region; other site 338969001022 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 338969001023 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 338969001024 putative DNA binding site [nucleotide binding]; other site 338969001025 putative Zn2+ binding site [ion binding]; other site 338969001026 AsnC family; Region: AsnC_trans_reg; pfam01037 338969001027 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 338969001028 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969001029 substrate binding pocket [chemical binding]; other site 338969001030 membrane-bound complex binding site; other site 338969001031 hinge residues; other site 338969001032 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969001033 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 338969001034 dimer interface [polypeptide binding]; other site 338969001035 conserved gate region; other site 338969001036 putative PBP binding loops; other site 338969001037 ABC-ATPase subunit interface; other site 338969001038 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969001039 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 338969001040 dimer interface [polypeptide binding]; other site 338969001041 conserved gate region; other site 338969001042 putative PBP binding loops; other site 338969001043 ABC-ATPase subunit interface; other site 338969001044 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969001045 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969001046 Walker A/P-loop; other site 338969001047 ATP binding site [chemical binding]; other site 338969001048 Q-loop/lid; other site 338969001049 ABC transporter signature motif; other site 338969001050 Walker B; other site 338969001051 D-loop; other site 338969001052 H-loop/switch region; other site 338969001053 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 338969001054 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969001055 hypothetical protein; Provisional; Region: PRK07475 338969001056 Alkaline and neutral invertase; Region: Glyco_hydro_100; cl17340 338969001057 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001058 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 338969001059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969001060 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 338969001061 dimerization interface [polypeptide binding]; other site 338969001062 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 338969001063 dimer interface [polypeptide binding]; other site 338969001064 phosphorylation site [posttranslational modification] 338969001065 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 338969001066 ATP binding site [chemical binding]; other site 338969001067 Mg2+ binding site [ion binding]; other site 338969001068 G-X-G motif; other site 338969001069 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338969001070 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 338969001071 active site 338969001072 phosphorylation site [posttranslational modification] 338969001073 intermolecular recognition site; other site 338969001074 dimerization interface [polypeptide binding]; other site 338969001075 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 338969001076 Walker A motif; other site 338969001077 ATP binding site [chemical binding]; other site 338969001078 Walker B motif; other site 338969001079 arginine finger; other site 338969001080 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969001081 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 338969001082 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001083 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001084 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001085 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001086 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001087 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001088 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338969001089 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 338969001090 TPR repeat; Region: TPR_11; pfam13414 338969001091 binding surface 338969001092 TPR motif; other site 338969001093 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001094 NHL repeat; Region: NHL; pfam01436 338969001095 Uncharacterized conserved protein [Function unknown]; Region: COG3391 338969001096 NHL repeat; Region: NHL; pfam01436 338969001097 NHL repeat; Region: NHL; pfam01436 338969001098 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001099 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 338969001100 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001101 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 338969001102 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969001103 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338969001104 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338969001105 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338969001106 phosphate acetyltransferase; Reviewed; Region: PRK05632 338969001107 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 338969001108 DRTGG domain; Region: DRTGG; pfam07085 338969001109 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 338969001110 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; cl17220 338969001111 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969001112 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 338969001113 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969001114 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969001115 active site 338969001116 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 338969001117 trimer interface [polypeptide binding]; other site 338969001118 eyelet of channel; other site 338969001119 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969001120 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969001121 Walker A/P-loop; other site 338969001122 ATP binding site [chemical binding]; other site 338969001123 Q-loop/lid; other site 338969001124 ABC transporter signature motif; other site 338969001125 Walker B; other site 338969001126 D-loop; other site 338969001127 H-loop/switch region; other site 338969001128 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969001129 TM-ABC transporter signature motif; other site 338969001130 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969001131 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969001132 Walker A/P-loop; other site 338969001133 ATP binding site [chemical binding]; other site 338969001134 Q-loop/lid; other site 338969001135 ABC transporter signature motif; other site 338969001136 Walker B; other site 338969001137 D-loop; other site 338969001138 H-loop/switch region; other site 338969001139 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969001140 TM-ABC transporter signature motif; other site 338969001141 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 338969001142 putative ligand binding site [chemical binding]; other site 338969001143 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 338969001144 active site 338969001145 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 338969001146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969001147 NAD(P) binding site [chemical binding]; other site 338969001148 active site 338969001149 putative acyltransferase; Provisional; Region: PRK05790 338969001150 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969001151 dimer interface [polypeptide binding]; other site 338969001152 active site 338969001153 feruloyl-CoA synthase; Reviewed; Region: PRK08180 338969001154 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 338969001155 acyl-activating enzyme (AAE) consensus motif; other site 338969001156 putative AMP binding site [chemical binding]; other site 338969001157 putative active site [active] 338969001158 putative CoA binding site [chemical binding]; other site 338969001159 enoyl-CoA hydratase; Provisional; Region: PRK08150 338969001160 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 338969001161 substrate binding site [chemical binding]; other site 338969001162 oxyanion hole (OAH) forming residues; other site 338969001163 trimer interface [polypeptide binding]; other site 338969001164 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; cd01292 338969001165 active site 338969001166 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; cl19102 338969001167 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 338969001168 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 338969001169 NADP binding site [chemical binding]; other site 338969001170 Predicted transcriptional regulators [Transcription]; Region: COG1733 338969001171 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969001172 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338969001173 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 338969001174 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 338969001175 iron-sulfur cluster [ion binding]; other site 338969001176 [2Fe-2S] cluster binding site [ion binding]; other site 338969001177 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 338969001178 alpha subunit interface [polypeptide binding]; other site 338969001179 active site 338969001180 substrate binding site [chemical binding]; other site 338969001181 Fe binding site [ion binding]; other site 338969001182 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 338969001183 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 338969001184 FMN-binding pocket [chemical binding]; other site 338969001185 flavin binding motif; other site 338969001186 phosphate binding motif [ion binding]; other site 338969001187 beta-alpha-beta structure motif; other site 338969001188 NAD binding pocket [chemical binding]; other site 338969001189 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 338969001190 catalytic loop [active] 338969001191 iron binding site [ion binding]; other site 338969001192 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969001193 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338969001194 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 338969001195 EamA-like transporter family; Region: EamA; pfam00892 338969001196 EamA-like transporter family; Region: EamA; pfam00892 338969001197 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 338969001198 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338969001199 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969001200 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969001201 TM-ABC transporter signature motif; other site 338969001202 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969001203 TM-ABC transporter signature motif; other site 338969001204 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969001205 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969001206 Walker A/P-loop; other site 338969001207 ATP binding site [chemical binding]; other site 338969001208 Q-loop/lid; other site 338969001209 ABC transporter signature motif; other site 338969001210 Walker B; other site 338969001211 D-loop; other site 338969001212 H-loop/switch region; other site 338969001213 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969001214 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969001215 Walker A/P-loop; other site 338969001216 ATP binding site [chemical binding]; other site 338969001217 Q-loop/lid; other site 338969001218 ABC transporter signature motif; other site 338969001219 Walker B; other site 338969001220 D-loop; other site 338969001221 H-loop/switch region; other site 338969001222 Hemerythrin-like domain; Region: Hr-like; cd12108 338969001223 Fe binding site [ion binding]; other site 338969001224 protocatechuate 4,5-dioxygenase subunit beta; Provisional; Region: PRK13364 338969001225 active site 338969001226 metal binding site [ion binding]; metal-binding site 338969001227 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 338969001228 putative dimer interface [polypeptide binding]; other site 338969001229 putative tetramer interface [polypeptide binding]; other site 338969001230 putative active site [active] 338969001231 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969001232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969001233 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 338969001234 substrate binding pocket [chemical binding]; other site 338969001235 dimerization interface [polypeptide binding]; other site 338969001236 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 338969001237 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 338969001238 Cupin domain; Region: Cupin_2; cl17218 338969001239 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969001240 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 338969001241 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 338969001242 catalytic loop [active] 338969001243 iron binding site [ion binding]; other site 338969001244 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 338969001245 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969001246 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969001247 Reductase C-terminal; Region: Reductase_C; pfam14759 338969001248 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 338969001249 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 338969001250 active site 338969001251 catalytic tetrad [active] 338969001252 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969001253 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969001254 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 338969001255 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 338969001256 putative NAD(P) binding site [chemical binding]; other site 338969001257 short chain dehydrogenase; Validated; Region: PRK08264 338969001258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969001259 NAD(P) binding site [chemical binding]; other site 338969001260 active site 338969001261 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 338969001262 FMN binding site [chemical binding]; other site 338969001263 active site 338969001264 substrate binding site [chemical binding]; other site 338969001265 catalytic residue [active] 338969001266 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 338969001267 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969001268 TAP-like protein; Region: Abhydrolase_4; pfam08386 338969001269 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 338969001270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969001271 NAD(P) binding site [chemical binding]; other site 338969001272 active site 338969001273 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 338969001274 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 338969001275 NADP binding site [chemical binding]; other site 338969001276 dimer interface [polypeptide binding]; other site 338969001277 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 338969001278 classical (c) SDRs; Region: SDR_c; cd05233 338969001279 NAD(P) binding site [chemical binding]; other site 338969001280 active site 338969001281 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 338969001282 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969001283 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 338969001284 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 338969001285 putative active site [active] 338969001286 putative FMN binding site [chemical binding]; other site 338969001287 putative substrate binding site [chemical binding]; other site 338969001288 putative catalytic residue [active] 338969001289 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 338969001290 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 338969001291 putative substrate translocation pore; other site 338969001292 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 338969001293 CoenzymeA binding site [chemical binding]; other site 338969001294 subunit interaction site [polypeptide binding]; other site 338969001295 PHB binding site; other site 338969001296 YcfA-like protein; Region: YcfA; cl00752 338969001297 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 338969001298 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338969001299 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969001300 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 338969001301 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 338969001302 short chain dehydrogenase; Provisional; Region: PRK08267 338969001303 classical (c) SDR, subgroup 9; Region: SDR_c9; cd08931 338969001304 putative NAD(P) binding site [chemical binding]; other site 338969001305 active site 338969001306 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 338969001307 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969001308 acyl-activating enzyme (AAE) consensus motif; other site 338969001309 AMP binding site [chemical binding]; other site 338969001310 active site 338969001311 CoA binding site [chemical binding]; other site 338969001312 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 338969001313 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969001314 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969001315 Secretory lipase; Region: LIP; pfam03583 338969001316 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969001317 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 338969001318 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 338969001319 substrate binding site [chemical binding]; other site 338969001320 oxyanion hole (OAH) forming residues; other site 338969001321 trimer interface [polypeptide binding]; other site 338969001322 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969001323 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969001324 WHG domain; Region: WHG; pfam13305 338969001325 CreA protein; Region: CreA; pfam05981 338969001326 lytic murein transglycosylase; Region: MltB_2; TIGR02283 338969001327 Transglycosylase SLT domain; Region: SLT_2; pfam13406 338969001328 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 338969001329 Immediate early response protein (IER); Region: IER; pfam05760 338969001330 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 338969001331 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 338969001332 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 338969001333 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 338969001334 active site 338969001335 Fe(II) binding site [ion binding]; other site 338969001336 dimer interface [polypeptide binding]; other site 338969001337 tetramer interface [polypeptide binding]; other site 338969001338 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 338969001339 tetramer interface [polypeptide binding]; other site 338969001340 dimer interface [polypeptide binding]; other site 338969001341 active site 338969001342 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 338969001343 active site 338969001344 MepB protein; Region: MepB; cl01985 338969001345 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969001346 SEC-C motif; Region: SEC-C; cl19389 338969001347 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338969001348 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 338969001349 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 338969001350 hypothetical protein; Provisional; Region: PRK09262 338969001351 Amidohydrolase; Region: Amidohydro_2; pfam04909 338969001352 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 338969001353 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 338969001354 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 338969001355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969001356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969001357 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 338969001358 dimerization interface [polypeptide binding]; other site 338969001359 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 338969001360 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 338969001361 active site 338969001362 catalytic tetrad [active] 338969001363 aromatic amino acid exporter; Provisional; Region: PRK11689 338969001364 EamA-like transporter family; Region: EamA; pfam00892 338969001365 threonine dehydratase; Provisional; Region: PRK07334 338969001366 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 338969001367 tetramer interface [polypeptide binding]; other site 338969001368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969001369 catalytic residue [active] 338969001370 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 338969001371 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 338969001372 oligomer interface [polypeptide binding]; other site 338969001373 putative active site [active] 338969001374 Mn binding site [ion binding]; other site 338969001375 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 338969001376 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 338969001377 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 338969001378 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969001379 DNA-binding site [nucleotide binding]; DNA binding site 338969001380 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 338969001381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969001382 homodimer interface [polypeptide binding]; other site 338969001383 catalytic residue [active] 338969001384 Peptidase C26; Region: Peptidase_C26; pfam07722 338969001385 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 338969001386 catalytic triad [active] 338969001387 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 338969001388 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 338969001389 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 338969001390 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 338969001391 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 338969001392 inhibitor-cofactor binding pocket; inhibition site 338969001393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969001394 catalytic residue [active] 338969001395 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 338969001396 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 338969001397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969001398 Walker A/P-loop; other site 338969001399 ATP binding site [chemical binding]; other site 338969001400 Q-loop/lid; other site 338969001401 ABC transporter signature motif; other site 338969001402 Walker B; other site 338969001403 D-loop; other site 338969001404 H-loop/switch region; other site 338969001405 TOBE domain; Region: TOBE_2; pfam08402 338969001406 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 338969001407 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 338969001408 dimer interface [polypeptide binding]; other site 338969001409 conserved gate region; other site 338969001410 putative PBP binding loops; other site 338969001411 ABC-ATPase subunit interface; other site 338969001412 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 338969001413 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 338969001414 dimer interface [polypeptide binding]; other site 338969001415 conserved gate region; other site 338969001416 putative PBP binding loops; other site 338969001417 ABC-ATPase subunit interface; other site 338969001418 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 338969001419 NAD(P) binding site [chemical binding]; other site 338969001420 catalytic residues [active] 338969001421 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 338969001422 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 338969001423 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969001424 putative substrate translocation pore; other site 338969001425 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 338969001426 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 338969001427 binding surface 338969001428 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338969001429 TPR motif; other site 338969001430 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338969001431 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 338969001432 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 338969001433 active site 338969001434 nucleophile elbow; other site 338969001435 6-phosphofructokinase; Provisional; Region: PRK14072 338969001436 active site 338969001437 ADP/pyrophosphate binding site [chemical binding]; other site 338969001438 allosteric effector site; other site 338969001439 dimerization interface [polypeptide binding]; other site 338969001440 fructose-1,6-bisphosphate binding site; other site 338969001441 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 338969001442 Fe binding site [ion binding]; other site 338969001443 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 338969001444 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 338969001445 active site 338969001446 phosphorylation site [posttranslational modification] 338969001447 intermolecular recognition site; other site 338969001448 dimerization interface [polypeptide binding]; other site 338969001449 MltA specific insert domain; Region: MltA; smart00925 338969001450 3D domain; Region: 3D; pfam06725 338969001451 TIGR02099 family protein; Region: TIGR02099 338969001452 Protein of unknown function; Region: DUF3971; pfam13116 338969001453 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 338969001454 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 338969001455 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338969001456 metal binding triad; other site 338969001457 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 338969001458 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338969001459 metal binding triad; other site 338969001460 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; cl19627 338969001461 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 338969001462 ATP cone domain; Region: ATP-cone; pfam03477 338969001463 Class III ribonucleotide reductase; Region: RNR_III; cd01675 338969001464 effector binding site; other site 338969001465 active site 338969001466 Zn binding site [ion binding]; other site 338969001467 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 338969001468 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 338969001469 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 338969001470 FeS/SAM binding site; other site 338969001471 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 338969001472 dimerization interface [polypeptide binding]; other site 338969001473 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969001474 ligand binding site [chemical binding]; other site 338969001475 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 338969001476 tetrameric interface [polypeptide binding]; other site 338969001477 NAD binding site [chemical binding]; other site 338969001478 catalytic residues [active] 338969001479 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 338969001480 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 338969001481 inhibitor-cofactor binding pocket; inhibition site 338969001482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969001483 catalytic residue [active] 338969001484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969001485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969001486 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 338969001487 dimerization interface [polypeptide binding]; other site 338969001488 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cl07889 338969001489 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 338969001490 transmembrane helices; other site 338969001491 Citrate transporter; Region: CitMHS; pfam03600 338969001492 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 338969001493 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 338969001494 MMPL family; Region: MMPL; cl14618 338969001495 MMPL family; Region: MMPL; cl14618 338969001496 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969001497 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338969001498 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969001499 putative membrane fusion protein; Region: TIGR02828 338969001500 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 338969001501 putative FMN binding site [chemical binding]; other site 338969001502 NADPH bind site [chemical binding]; other site 338969001503 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 338969001504 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338969001505 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 338969001506 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 338969001507 E3 interaction surface; other site 338969001508 lipoyl attachment site [posttranslational modification]; other site 338969001509 e3 binding domain; Region: E3_binding; pfam02817 338969001510 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 338969001511 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 338969001512 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 338969001513 alpha subunit interface [polypeptide binding]; other site 338969001514 TPP binding site [chemical binding]; other site 338969001515 heterodimer interface [polypeptide binding]; other site 338969001516 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338969001517 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 338969001518 tetramer interface [polypeptide binding]; other site 338969001519 TPP-binding site [chemical binding]; other site 338969001520 heterodimer interface [polypeptide binding]; other site 338969001521 phosphorylation loop region [posttranslational modification] 338969001522 acetyl-CoA synthetase; Provisional; Region: PRK04319 338969001523 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969001524 acyl-activating enzyme (AAE) consensus motif; other site 338969001525 AMP binding site [chemical binding]; other site 338969001526 active site 338969001527 CoA binding site [chemical binding]; other site 338969001528 FOG: CBS domain [General function prediction only]; Region: COG0517 338969001529 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 338969001530 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 338969001531 BON domain; Region: BON; pfam04972 338969001532 BON domain; Region: BON; pfam04972 338969001533 BON domain; Region: BON; pfam04972 338969001534 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 338969001535 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 338969001536 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 338969001537 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969001538 active site 338969001539 Cytochrome c; Region: Cytochrom_C; cl11414 338969001540 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969001541 active site 338969001542 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338969001543 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338969001544 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 338969001545 FeS/SAM binding site; other site 338969001546 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; cl17315 338969001547 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 338969001548 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 338969001549 putative ligand binding pocket/active site [active] 338969001550 putative metal binding site [ion binding]; other site 338969001551 transcriptional regulator, ArgP family; Region: argP; TIGR03298 338969001552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969001553 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 338969001554 dimerization interface [polypeptide binding]; other site 338969001555 TetR family transcriptional regulator; Provisional; Region: PRK14996 338969001556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969001557 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 338969001558 Ligand Binding Site [chemical binding]; other site 338969001559 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 338969001560 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 338969001561 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969001562 hypothetical protein; Provisional; Region: PRK08201 338969001563 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 338969001564 metal binding site [ion binding]; metal-binding site 338969001565 putative dimer interface [polypeptide binding]; other site 338969001566 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 338969001567 FMN binding site [chemical binding]; other site 338969001568 active site 338969001569 substrate binding site [chemical binding]; other site 338969001570 catalytic residue [active] 338969001571 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 338969001572 S-adenosylmethionine binding site [chemical binding]; other site 338969001573 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 338969001574 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 338969001575 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 338969001576 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 338969001577 ATP binding site [chemical binding]; other site 338969001578 putative Mg++ binding site [ion binding]; other site 338969001579 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 338969001580 nucleotide binding region [chemical binding]; other site 338969001581 ATP-binding site [chemical binding]; other site 338969001582 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 338969001583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969001584 Helix-turn-helix domain; Region: HTH_18; pfam12833 338969001585 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969001586 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969001587 EamA-like transporter family; Region: EamA; pfam00892 338969001588 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 338969001589 MMPL family; Region: MMPL; cl14618 338969001590 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 338969001591 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 338969001592 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969001593 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 338969001594 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338969001595 Outer membrane efflux protein; Region: OEP; pfam02321 338969001596 Outer membrane efflux protein; Region: OEP; pfam02321 338969001597 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 338969001598 CHASE3 domain; Region: CHASE3; cl05000 338969001599 Thioredoxin; Region: Thioredoxin_4; pfam13462 338969001600 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 338969001601 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 338969001602 Copper resistance protein K; Region: CopK; pfam11525 338969001603 YHS domain; Region: YHS; pfam04945 338969001604 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338969001605 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338969001606 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 338969001607 motif II; other site 338969001608 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 338969001609 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 338969001610 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 338969001611 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 338969001612 active site 338969001613 phosphorylation site [posttranslational modification] 338969001614 intermolecular recognition site; other site 338969001615 dimerization interface [polypeptide binding]; other site 338969001616 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 338969001617 DNA binding site [nucleotide binding] 338969001618 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 338969001619 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 338969001620 dimerization interface [polypeptide binding]; other site 338969001621 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 338969001622 dimer interface [polypeptide binding]; other site 338969001623 phosphorylation site [posttranslational modification] 338969001624 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 338969001625 ATP binding site [chemical binding]; other site 338969001626 Mg2+ binding site [ion binding]; other site 338969001627 G-X-G motif; other site 338969001628 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 338969001629 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 338969001630 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 338969001631 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 338969001632 active site 338969001633 ATP binding site [chemical binding]; other site 338969001634 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 338969001635 HSP70 interaction site [polypeptide binding]; other site 338969001636 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338969001637 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 338969001638 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 338969001639 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 338969001640 classical (c) SDRs; Region: SDR_c; cd05233 338969001641 NAD(P) binding site [chemical binding]; other site 338969001642 active site 338969001643 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969001644 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 338969001645 putative substrate translocation pore; other site 338969001646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969001647 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338969001648 extended (e) SDRs; Region: SDR_e; cd08946 338969001649 NAD(P) binding site [chemical binding]; other site 338969001650 active site 338969001651 substrate binding site [chemical binding]; other site 338969001652 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 338969001653 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 338969001654 Walker A/P-loop; other site 338969001655 ATP binding site [chemical binding]; other site 338969001656 Q-loop/lid; other site 338969001657 ABC transporter signature motif; other site 338969001658 Walker B; other site 338969001659 D-loop; other site 338969001660 H-loop/switch region; other site 338969001661 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 338969001662 Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs; Region: PBP1_tmGBP; cd06314 338969001663 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 338969001664 ligand binding site [chemical binding]; other site 338969001665 dimerization interface [polypeptide binding]; other site 338969001666 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 338969001667 TM-ABC transporter signature motif; other site 338969001668 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 338969001669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969001670 transcriptional activator TtdR; Provisional; Region: PRK09801 338969001671 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_9; cd08479 338969001672 putative effector binding pocket; other site 338969001673 putative dimerization interface [polypeptide binding]; other site 338969001674 hypothetical protein; Provisional; Region: PRK06194 338969001675 classical (c) SDRs; Region: SDR_c; cd05233 338969001676 NAD(P) binding site [chemical binding]; other site 338969001677 active site 338969001678 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 338969001679 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 338969001680 putative aldolase; Validated; Region: PRK08130 338969001681 intersubunit interface [polypeptide binding]; other site 338969001682 active site 338969001683 Zn2+ binding site [ion binding]; other site 338969001684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 338969001685 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338969001686 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 338969001687 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 338969001688 Transcriptional regulators [Transcription]; Region: GntR; COG1802 338969001689 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969001690 DNA-binding site [nucleotide binding]; DNA binding site 338969001691 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 338969001692 DctM-like transporters; Region: DctM; pfam06808 338969001693 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 338969001694 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 338969001695 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 338969001696 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338969001697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969001698 NAD(P) binding site [chemical binding]; other site 338969001699 active site 338969001700 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 338969001701 NAD(P) binding site [chemical binding]; other site 338969001702 catalytic residues [active] 338969001703 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 338969001704 inhibitor site; inhibition site 338969001705 active site 338969001706 dimer interface [polypeptide binding]; other site 338969001707 catalytic residue [active] 338969001708 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 338969001709 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 338969001710 active site 338969001711 catalytic residues [active] 338969001712 metal binding site [ion binding]; metal-binding site 338969001713 DmpG-like communication domain; Region: DmpG_comm; pfam07836 338969001714 acetaldehyde dehydrogenase; Validated; Region: PRK08300 338969001715 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 338969001716 Prokaryotic acetaldehyde dehydrogenase, dimerization; Region: AcetDehyd-dimer; pfam09290 338969001717 dihydroxy-acid dehydratase; Validated; Region: PRK06131 338969001718 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 338969001719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969001720 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 338969001721 dimerization interface [polypeptide binding]; other site 338969001722 PAS fold; Region: PAS_4; pfam08448 338969001723 GAF domain; Region: GAF_2; pfam13185 338969001724 PAS domain S-box; Region: sensory_box; TIGR00229 338969001725 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969001726 putative active site [active] 338969001727 heme pocket [chemical binding]; other site 338969001728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969001729 metal binding site [ion binding]; metal-binding site 338969001730 active site 338969001731 I-site; other site 338969001732 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969001733 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 338969001734 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 338969001735 ATP binding site [chemical binding]; other site 338969001736 putative Mg++ binding site [ion binding]; other site 338969001737 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 338969001738 nucleotide binding region [chemical binding]; other site 338969001739 ATP-binding site [chemical binding]; other site 338969001740 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 338969001741 HRDC domain; Region: HRDC; pfam00570 338969001742 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 338969001743 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 338969001744 homodimer interface [polypeptide binding]; other site 338969001745 substrate-cofactor binding pocket; other site 338969001746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969001747 catalytic residue [active] 338969001748 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 338969001749 dimerization interface [polypeptide binding]; other site 338969001750 putative DNA binding site [nucleotide binding]; other site 338969001751 putative Zn2+ binding site [ion binding]; other site 338969001752 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; cl00125 338969001753 active site residue [active] 338969001754 DsrE/DsrF-like family; Region: DrsE; cl00672 338969001755 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; cl18945 338969001756 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 338969001757 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 338969001758 substrate binding pocket [chemical binding]; other site 338969001759 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 338969001760 B12 binding site [chemical binding]; other site 338969001761 cobalt ligand [ion binding]; other site 338969001762 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 338969001763 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969001764 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 338969001765 putative substrate translocation pore; other site 338969001766 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338969001767 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 338969001768 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 338969001769 P-loop; other site 338969001770 Magnesium ion binding site [ion binding]; other site 338969001771 GAF domain; Region: GAF_2; pfam13185 338969001772 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969001773 metal binding site [ion binding]; metal-binding site 338969001774 active site 338969001775 I-site; other site 338969001776 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969001777 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338969001778 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 338969001779 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 338969001780 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 338969001781 Walker A motif; other site 338969001782 ATP binding site [chemical binding]; other site 338969001783 Walker B motif; other site 338969001784 arginine finger; other site 338969001785 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338969001786 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 338969001787 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 338969001788 transcriptional regulator; Provisional; Region: PRK10632 338969001789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969001790 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 338969001791 putative effector binding pocket; other site 338969001792 dimerization interface [polypeptide binding]; other site 338969001793 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 338969001794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969001795 NAD(P) binding site [chemical binding]; other site 338969001796 active site 338969001797 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 338969001798 FMN binding site [chemical binding]; other site 338969001799 active site 338969001800 substrate binding site [chemical binding]; other site 338969001801 catalytic residue [active] 338969001802 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 338969001803 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969001804 active site 338969001805 phosphorylation site [posttranslational modification] 338969001806 intermolecular recognition site; other site 338969001807 dimerization interface [polypeptide binding]; other site 338969001808 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338969001809 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 338969001810 binding surface 338969001811 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338969001812 TPR motif; other site 338969001813 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338969001814 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 338969001815 TPR motif; other site 338969001816 binding surface 338969001817 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 338969001818 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969001819 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 338969001820 ATP binding site [chemical binding]; other site 338969001821 Mg2+ binding site [ion binding]; other site 338969001822 G-X-G motif; other site 338969001823 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 338969001824 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 338969001825 FAD binding domain; Region: FAD_binding_4; pfam01565 338969001826 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 338969001827 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 338969001828 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 338969001829 Cysteine-rich domain; Region: CCG; pfam02754 338969001830 Cysteine-rich domain; Region: CCG; pfam02754 338969001831 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 338969001832 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 338969001833 Sel1-like repeats; Region: SEL1; smart00671 338969001834 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338969001835 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 338969001836 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969001837 catalytic residue [active] 338969001838 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 338969001839 catalytic residues [active] 338969001840 dimer interface [polypeptide binding]; other site 338969001841 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 338969001842 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969001843 EamA-like transporter family; Region: EamA; pfam00892 338969001844 lysophospholipid transporter LplT; Provisional; Region: PRK11195 338969001845 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 338969001846 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969001847 putative substrate translocation pore; other site 338969001848 alanine racemase; Reviewed; Region: dadX; PRK03646 338969001849 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 338969001850 active site 338969001851 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338969001852 substrate binding site [chemical binding]; other site 338969001853 catalytic residues [active] 338969001854 dimer interface [polypeptide binding]; other site 338969001855 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 338969001856 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 338969001857 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 338969001858 HSP70 interaction site [polypeptide binding]; other site 338969001859 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 338969001860 substrate binding site [polypeptide binding]; other site 338969001861 dimer interface [polypeptide binding]; other site 338969001862 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338969001863 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 338969001864 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 338969001865 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338969001866 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338969001867 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 338969001868 motif II; other site 338969001869 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338969001870 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 338969001871 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 338969001872 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338969001873 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338969001874 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 338969001875 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338969001876 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 338969001877 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 338969001878 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 338969001879 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 338969001880 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 338969001881 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 338969001882 FAD binding pocket [chemical binding]; other site 338969001883 FAD binding motif [chemical binding]; other site 338969001884 phosphate binding motif [ion binding]; other site 338969001885 beta-alpha-beta structure motif; other site 338969001886 NAD binding pocket [chemical binding]; other site 338969001887 Heme binding pocket [chemical binding]; other site 338969001888 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 338969001889 catalytic loop [active] 338969001890 iron binding site [ion binding]; other site 338969001891 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338969001892 Cytochrome c7; Region: Cytochrome_C7; cl19206 338969001893 DNA repair protein RadA; Provisional; Region: PRK11823 338969001894 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 338969001895 Walker A motif/ATP binding site; other site 338969001896 ATP binding site [chemical binding]; other site 338969001897 Walker B motif; other site 338969001898 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 338969001899 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 338969001900 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 338969001901 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 338969001902 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 338969001903 active site 338969001904 phosphorylation site [posttranslational modification] 338969001905 intermolecular recognition site; other site 338969001906 dimerization interface [polypeptide binding]; other site 338969001907 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 338969001908 DNA binding site [nucleotide binding] 338969001909 sensor protein QseC; Provisional; Region: PRK10337 338969001910 HAMP domain; Region: HAMP; pfam00672 338969001911 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 338969001912 dimer interface [polypeptide binding]; other site 338969001913 phosphorylation site [posttranslational modification] 338969001914 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 338969001915 ATP binding site [chemical binding]; other site 338969001916 Mg2+ binding site [ion binding]; other site 338969001917 G-X-G motif; other site 338969001918 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 338969001919 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 338969001920 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 338969001921 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 338969001922 homodimer interface [polypeptide binding]; other site 338969001923 substrate-cofactor binding pocket; other site 338969001924 catalytic residue [active] 338969001925 Zinc-finger domain; Region: zf-CHCC; cl01821 338969001926 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 338969001927 putative active site [active] 338969001928 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969001929 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 338969001930 dimerization interface [polypeptide binding]; other site 338969001931 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 338969001932 dimer interface [polypeptide binding]; other site 338969001933 phosphorylation site [posttranslational modification] 338969001934 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 338969001935 ATP binding site [chemical binding]; other site 338969001936 Mg2+ binding site [ion binding]; other site 338969001937 G-X-G motif; other site 338969001938 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969001939 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 338969001940 active site 338969001941 phosphorylation site [posttranslational modification] 338969001942 intermolecular recognition site; other site 338969001943 dimerization interface [polypeptide binding]; other site 338969001944 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 338969001945 DNA binding site [nucleotide binding] 338969001946 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 338969001947 homodimer interface [polypeptide binding]; other site 338969001948 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 338969001949 active site pocket [active] 338969001950 glycogen synthase; Provisional; Region: glgA; PRK00654 338969001951 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 338969001952 ADP-binding pocket [chemical binding]; other site 338969001953 homodimer interface [polypeptide binding]; other site 338969001954 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 338969001955 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 338969001956 ligand binding site; other site 338969001957 oligomer interface; other site 338969001958 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 338969001959 dimer interface [polypeptide binding]; other site 338969001960 N-terminal domain interface [polypeptide binding]; other site 338969001961 sulfate 1 binding site; other site 338969001962 4-alpha-glucanotransferase; Provisional; Region: PRK14508 338969001963 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 338969001964 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 338969001965 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 338969001966 active site 338969001967 catalytic site [active] 338969001968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969001969 muropeptide transporter; Reviewed; Region: ampG; cl17669 338969001970 Peptidase family M48; Region: Peptidase_M48; pfam01435 338969001971 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 338969001972 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 338969001973 dimer interface [polypeptide binding]; other site 338969001974 PYR/PP interface [polypeptide binding]; other site 338969001975 TPP binding site [chemical binding]; other site 338969001976 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338969001977 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 338969001978 TPP-binding site [chemical binding]; other site 338969001979 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 338969001980 Predicted membrane protein [Function unknown]; Region: COG2119 338969001981 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 338969001982 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 338969001983 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 338969001984 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969001985 active site 338969001986 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 338969001987 Phospholipase A1; Region: PLA1; pfam02253 338969001988 substrate binding site [chemical binding]; other site 338969001989 dimerization interface [polypeptide binding]; other site 338969001990 active site 338969001991 calcium binding site [ion binding]; other site 338969001992 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 338969001993 trimer interface [polypeptide binding]; other site 338969001994 eyelet of channel; other site 338969001995 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 338969001996 trimer interface [polypeptide binding]; other site 338969001997 eyelet of channel; other site 338969001998 thiamine monophosphate kinase; Provisional; Region: PRK05731 338969001999 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 338969002000 ATP binding site [chemical binding]; other site 338969002001 dimerization interface [polypeptide binding]; other site 338969002002 Site-specific recombinase; Region: SpecificRecomb; pfam10136 338969002003 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 338969002004 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 338969002005 substrate binding site [chemical binding]; other site 338969002006 hexamer interface [polypeptide binding]; other site 338969002007 metal binding site [ion binding]; metal-binding site 338969002008 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338969002009 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 338969002010 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 338969002011 Type II transport protein GspH; Region: GspH; pfam12019 338969002012 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 338969002013 type II secretion system protein I; Region: gspI; TIGR01707 338969002014 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 338969002015 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 338969002016 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 338969002017 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 338969002018 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 338969002019 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 338969002020 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 338969002021 type II secretion system protein D; Region: type_II_gspD; TIGR02517 338969002022 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 338969002023 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 338969002024 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 338969002025 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338969002026 type II secretion system protein E; Region: type_II_gspE; TIGR02533 338969002027 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 338969002028 Walker A motif; other site 338969002029 ATP binding site [chemical binding]; other site 338969002030 Walker B motif; other site 338969002031 type II secretion system protein F; Region: GspF; TIGR02120 338969002032 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338969002033 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338969002034 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 338969002035 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 338969002036 acyl-activating enzyme (AAE) consensus motif; other site 338969002037 putative AMP binding site [chemical binding]; other site 338969002038 putative active site [active] 338969002039 putative CoA binding site [chemical binding]; other site 338969002040 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 338969002041 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 338969002042 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969002043 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 338969002044 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 338969002045 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 338969002046 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 338969002047 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 338969002048 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 338969002049 FliG N-terminal domain; Region: FliG_N; pfam14842 338969002050 FliG middle domain; Region: FliG_M; pfam14841 338969002051 FliG C-terminal domain; Region: FliG_C; pfam01706 338969002052 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 338969002053 Flagellar assembly protein FliH; Region: FliH; pfam02108 338969002054 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 338969002055 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 338969002056 Walker A motif/ATP binding site; other site 338969002057 Walker B motif; other site 338969002058 Flagellar FliJ protein; Region: FliJ; pfam02050 338969002059 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 338969002060 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 338969002061 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 338969002062 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 338969002063 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 338969002064 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 338969002065 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 338969002066 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 338969002067 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 338969002068 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 338969002069 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969002070 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 338969002071 active site 338969002072 phosphorylation site [posttranslational modification] 338969002073 intermolecular recognition site; other site 338969002074 dimerization interface [polypeptide binding]; other site 338969002075 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 338969002076 DNA binding residues [nucleotide binding] 338969002077 dimerization interface [polypeptide binding]; other site 338969002078 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 338969002079 active site 338969002080 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969002081 phosphorylation site [posttranslational modification] 338969002082 intermolecular recognition site; other site 338969002083 dimerization interface [polypeptide binding]; other site 338969002084 Histidine kinase; Region: HisKA_3; pfam07730 338969002085 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 338969002086 ATP binding site [chemical binding]; other site 338969002087 Mg2+ binding site [ion binding]; other site 338969002088 G-X-G motif; other site 338969002089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969002090 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 338969002091 active site 338969002092 phosphorylation site [posttranslational modification] 338969002093 intermolecular recognition site; other site 338969002094 dimerization interface [polypeptide binding]; other site 338969002095 chemotaxis protein CheA; Provisional; Region: PRK10547 338969002096 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338969002097 putative binding surface; other site 338969002098 active site 338969002099 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338969002100 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 338969002101 ATP binding site [chemical binding]; other site 338969002102 Mg2+ binding site [ion binding]; other site 338969002103 G-X-G motif; other site 338969002104 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 338969002105 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 338969002106 putative CheA interaction surface; other site 338969002107 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 338969002108 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338969002109 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 338969002110 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 338969002111 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 338969002112 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 338969002113 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 338969002114 active site 338969002115 phosphorylation site [posttranslational modification] 338969002116 intermolecular recognition site; other site 338969002117 dimerization interface [polypeptide binding]; other site 338969002118 CheB methylesterase; Region: CheB_methylest; pfam01339 338969002119 choline dehydrogenase; Validated; Region: PRK02106 338969002120 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969002121 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969002122 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 338969002123 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969002124 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338969002125 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 338969002126 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 338969002127 serine/threonine protein kinase; Provisional; Region: PRK11768 338969002128 Phosphotransferase enzyme family; Region: APH; pfam01636 338969002129 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338969002130 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969002131 putative active site [active] 338969002132 heme pocket [chemical binding]; other site 338969002133 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 338969002134 dimer interface [polypeptide binding]; other site 338969002135 phosphorylation site [posttranslational modification] 338969002136 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 338969002137 ATP binding site [chemical binding]; other site 338969002138 Mg2+ binding site [ion binding]; other site 338969002139 G-X-G motif; other site 338969002140 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 338969002141 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 338969002142 active site 338969002143 phosphorylation site [posttranslational modification] 338969002144 intermolecular recognition site; other site 338969002145 dimerization interface [polypeptide binding]; other site 338969002146 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 338969002147 DNA binding site [nucleotide binding] 338969002148 transcriptional regulator PhoU; Provisional; Region: PRK11115 338969002149 PhoU domain; Region: PhoU; pfam01895 338969002150 PhoU domain; Region: PhoU; pfam01895 338969002151 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 338969002152 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 338969002153 Walker A/P-loop; other site 338969002154 ATP binding site [chemical binding]; other site 338969002155 Q-loop/lid; other site 338969002156 ABC transporter signature motif; other site 338969002157 Walker B; other site 338969002158 D-loop; other site 338969002159 H-loop/switch region; other site 338969002160 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 338969002161 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 338969002162 dimer interface [polypeptide binding]; other site 338969002163 conserved gate region; other site 338969002164 putative PBP binding loops; other site 338969002165 ABC-ATPase subunit interface; other site 338969002166 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 338969002167 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 338969002168 dimer interface [polypeptide binding]; other site 338969002169 conserved gate region; other site 338969002170 putative PBP binding loops; other site 338969002171 ABC-ATPase subunit interface; other site 338969002172 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 338969002173 transcriptional regulator EutR; Provisional; Region: PRK10130 338969002174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969002175 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969002176 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 338969002177 ethanolamine permease; Region: 2A0305; TIGR00908 338969002178 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 338969002179 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 338969002180 transglutaminase; Provisional; Region: tgl; PRK03187 338969002181 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 338969002182 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 338969002183 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 338969002184 motif 1; other site 338969002185 active site 338969002186 motif 2; other site 338969002187 motif 3; other site 338969002188 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 338969002189 DHHA1 domain; Region: DHHA1; pfam02272 338969002190 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 338969002191 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969002192 DNA-binding site [nucleotide binding]; DNA binding site 338969002193 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 338969002194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969002195 homodimer interface [polypeptide binding]; other site 338969002196 catalytic residue [active] 338969002197 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 338969002198 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 338969002199 inhibitor-cofactor binding pocket; inhibition site 338969002200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969002201 catalytic residue [active] 338969002202 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 338969002203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969002204 Walker A/P-loop; other site 338969002205 ATP binding site [chemical binding]; other site 338969002206 Q-loop/lid; other site 338969002207 ABC transporter signature motif; other site 338969002208 Walker B; other site 338969002209 D-loop; other site 338969002210 H-loop/switch region; other site 338969002211 TOBE domain; Region: TOBE_2; pfam08402 338969002212 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 338969002213 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 338969002214 dimer interface [polypeptide binding]; other site 338969002215 conserved gate region; other site 338969002216 putative PBP binding loops; other site 338969002217 ABC-ATPase subunit interface; other site 338969002218 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 338969002219 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 338969002220 dimer interface [polypeptide binding]; other site 338969002221 conserved gate region; other site 338969002222 putative PBP binding loops; other site 338969002223 ABC-ATPase subunit interface; other site 338969002224 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 338969002225 oligomer interface [polypeptide binding]; other site 338969002226 putative active site [active] 338969002227 Mn binding site [ion binding]; other site 338969002228 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 338969002229 tetramerization interface [polypeptide binding]; other site 338969002230 NAD(P) binding site [chemical binding]; other site 338969002231 catalytic residues [active] 338969002232 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 338969002233 Cytochrome C' Region: Cytochrom_C_2; pfam01322 338969002234 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; cl00025 338969002235 active pocket/dimerization site; other site 338969002236 active site 338969002237 phosphorylation site [posttranslational modification] 338969002238 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 338969002239 dimerization domain swap beta strand [polypeptide binding]; other site 338969002240 regulatory protein interface [polypeptide binding]; other site 338969002241 active site 338969002242 regulatory phosphorylation site [posttranslational modification]; other site 338969002243 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 338969002244 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 338969002245 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 338969002246 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 338969002247 LrgB-like family; Region: LrgB; cl00596 338969002248 LrgA family; Region: LrgA; pfam03788 338969002249 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 338969002250 FAD binding domain; Region: FAD_binding_4; pfam01565 338969002251 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 338969002252 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 338969002253 enoyl-CoA hydratase; Validated; Region: PRK08139 338969002254 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 338969002255 substrate binding site [chemical binding]; other site 338969002256 oxyanion hole (OAH) forming residues; other site 338969002257 trimer interface [polypeptide binding]; other site 338969002258 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 338969002259 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 338969002260 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 338969002261 putative active site [active] 338969002262 putative substrate binding site [chemical binding]; other site 338969002263 putative cosubstrate binding site; other site 338969002264 catalytic site [active] 338969002265 Protein of unknown function, DUF399; Region: DUF399; pfam04187 338969002266 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 338969002267 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 338969002268 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 338969002269 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 338969002270 MarC family integral membrane protein; Region: MarC; cl00919 338969002271 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 338969002272 Protein of unknown function (DUF461); Region: DUF461; pfam04314 338969002273 Protein of unknown function (DUF461); Region: DUF461; pfam04314 338969002274 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 338969002275 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 338969002276 tricarballylate utilization protein B; Provisional; Region: PRK15033 338969002277 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 338969002278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 338969002279 FIST N domain; Region: FIST; smart00897 338969002280 FIST C domain; Region: FIST_C; pfam10442 338969002281 prevent-host-death family protein; Region: phd_fam; TIGR01552 338969002282 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 338969002283 oligomeric interface; other site 338969002284 putative active site [active] 338969002285 homodimer interface [polypeptide binding]; other site 338969002286 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 338969002287 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 338969002288 C2 domain; Region: C2; cl14603 338969002289 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969002290 Zn2+ binding site [ion binding]; other site 338969002291 Mg2+ binding site [ion binding]; other site 338969002292 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 338969002293 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 338969002294 Ligand Binding Site [chemical binding]; other site 338969002295 flagellin; Reviewed; Region: PRK08869 338969002296 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 338969002297 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 338969002298 flagellin; Reviewed; Region: PRK08869 338969002299 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 338969002300 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 338969002301 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 338969002302 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 338969002303 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 338969002304 flagellar protein FliS; Validated; Region: fliS; PRK05685 338969002305 Flagellar protein FliT; Region: FliT; pfam05400 338969002306 Anti-sigma-K factor rskA; Region: RskA; pfam10099 338969002307 FOG: CBS domain [General function prediction only]; Region: COG0517 338969002308 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 338969002309 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 338969002310 HSP70 interaction site [polypeptide binding]; other site 338969002311 ABC transporter ATPase component; Reviewed; Region: PRK11147 338969002312 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338969002313 ABC transporter; Region: ABC_tran_2; pfam12848 338969002314 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338969002315 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 338969002316 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 338969002317 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 338969002318 motif II; other site 338969002319 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 338969002320 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 338969002321 G1 box; other site 338969002322 putative GEF interaction site [polypeptide binding]; other site 338969002323 GTP/Mg2+ binding site [chemical binding]; other site 338969002324 Switch I region; other site 338969002325 G2 box; other site 338969002326 G3 box; other site 338969002327 Switch II region; other site 338969002328 G4 box; other site 338969002329 G5 box; other site 338969002330 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 338969002331 Elongation Factor G, domain II; Region: EFG_II; pfam14492 338969002332 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 338969002333 classical (c) SDRs; Region: SDR_c; cd05233 338969002334 NAD(P) binding site [chemical binding]; other site 338969002335 active site 338969002336 TIGR03118 family protein; Region: PEPCTERM_chp_1 338969002337 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969002338 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969002339 EamA-like transporter family; Region: EamA; pfam00892 338969002340 EamA-like transporter family; Region: EamA; pfam00892 338969002341 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 338969002342 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 338969002343 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 338969002344 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 338969002345 homotetramer interface [polypeptide binding]; other site 338969002346 ligand binding site [chemical binding]; other site 338969002347 catalytic site [active] 338969002348 NAD binding site [chemical binding]; other site 338969002349 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 338969002350 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 338969002351 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 338969002352 S-adenosylmethionine binding site [chemical binding]; other site 338969002353 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 338969002354 FAD binding site [chemical binding]; other site 338969002355 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338969002356 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 338969002357 putative NAD(P) binding site [chemical binding]; other site 338969002358 active site 338969002359 putative substrate binding site [chemical binding]; other site 338969002360 Low molecular weight phosphatase family; Region: LMWPc; cd00115 338969002361 active site 338969002362 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 338969002363 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338969002364 SLBB domain; Region: SLBB; pfam10531 338969002365 Chain length determinant protein; Region: Wzz; pfam02706 338969002366 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 338969002367 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 338969002368 AAA domain; Region: AAA_31; pfam13614 338969002369 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 338969002370 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338969002371 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 338969002372 Walker A motif; other site 338969002373 ATP binding site [chemical binding]; other site 338969002374 Walker B motif; other site 338969002375 arginine finger; other site 338969002376 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 338969002377 active site 338969002378 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 338969002379 homodimer interface [polypeptide binding]; other site 338969002380 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 338969002381 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 338969002382 putative active site [active] 338969002383 putative catalytic site [active] 338969002384 FemAB-related protein, PEP-CTERM system-associated; Region: pepcterm_femAB; TIGR03019 338969002385 exosortase A; Region: exosortase_1; TIGR03109 338969002386 exosortase D, VPLPA-CTERM-specific; Region: exosort_VPLPA; TIGR04152 338969002387 EpsI family protein; Region: EpsI_fam; TIGR02914 338969002388 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 338969002389 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 338969002390 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 338969002391 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 338969002392 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 338969002393 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 338969002394 putative ADP-binding pocket [chemical binding]; other site 338969002395 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 338969002396 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 338969002397 active site 338969002398 dimer interface [polypeptide binding]; other site 338969002399 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 338969002400 Ligand Binding Site [chemical binding]; other site 338969002401 Molecular Tunnel; other site 338969002402 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 338969002403 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 338969002404 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 338969002405 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 338969002406 dimer interface [polypeptide binding]; other site 338969002407 active site 338969002408 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 338969002409 Ligand Binding Site [chemical binding]; other site 338969002410 Molecular Tunnel; other site 338969002411 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 338969002412 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 338969002413 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 338969002414 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 338969002415 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 338969002416 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 338969002417 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 338969002418 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338969002419 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 338969002420 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 338969002421 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969002422 AMP binding site [chemical binding]; other site 338969002423 active site 338969002424 acyl-activating enzyme (AAE) consensus motif; other site 338969002425 CoA binding site [chemical binding]; other site 338969002426 O-antigen ligase like membrane protein; Region: O-antigen_lig; cl04850 338969002427 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 338969002428 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 338969002429 putative active site [active] 338969002430 putative metal binding site [ion binding]; other site 338969002431 Disaggregatase related repeat; Region: Disaggr_repeat; pfam06848 338969002432 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 338969002433 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 338969002434 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338969002435 Disaggregatase related repeat; Region: Disaggr_repeat; pfam06848 338969002436 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 338969002437 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 338969002438 Ligand Binding Site [chemical binding]; other site 338969002439 Molecular Tunnel; other site 338969002440 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 338969002441 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 338969002442 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338969002443 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 338969002444 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338969002445 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 338969002446 active site 338969002447 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 338969002448 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 338969002449 trimer interface [polypeptide binding]; other site 338969002450 active site 338969002451 substrate binding site [chemical binding]; other site 338969002452 CoA binding site [chemical binding]; other site 338969002453 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 338969002454 inhibitor-cofactor binding pocket; inhibition site 338969002455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969002456 catalytic residue [active] 338969002457 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 338969002458 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 338969002459 putative trimer interface [polypeptide binding]; other site 338969002460 putative active site [active] 338969002461 putative substrate binding site [chemical binding]; other site 338969002462 putative CoA binding site [chemical binding]; other site 338969002463 WxcM-like, C-terminal; Region: FdtA; pfam05523 338969002464 colanic acid exporter; Provisional; Region: PRK10459 338969002465 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 338969002466 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 338969002467 TPR motif; other site 338969002468 TPR repeat; Region: TPR_11; pfam13414 338969002469 binding surface 338969002470 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969002471 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969002472 PEP-CTERM motif; Region: VPEP; pfam07589 338969002473 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 338969002474 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 338969002475 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969002476 acyl carrier protein; Provisional; Region: PRK07639 338969002477 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 338969002478 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969002479 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969002480 acyl-activating enzyme (AAE) consensus motif; other site 338969002481 acyl-activating enzyme (AAE) consensus motif; other site 338969002482 AMP binding site [chemical binding]; other site 338969002483 active site 338969002484 CoA binding site [chemical binding]; other site 338969002485 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 338969002486 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 338969002487 dimer interface [polypeptide binding]; other site 338969002488 active site 338969002489 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338969002490 catalytic residues [active] 338969002491 substrate binding site [chemical binding]; other site 338969002492 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 338969002493 Bacterial sugar transferase; Region: Bac_transf; pfam02397 338969002494 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 338969002495 GAF domain; Region: GAF_3; pfam13492 338969002496 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 338969002497 dimer interface [polypeptide binding]; other site 338969002498 phosphorylation site [posttranslational modification] 338969002499 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 338969002500 ATP binding site [chemical binding]; other site 338969002501 Mg2+ binding site [ion binding]; other site 338969002502 G-X-G motif; other site 338969002503 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 338969002504 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 338969002505 active site 338969002506 phosphorylation site [posttranslational modification] 338969002507 intermolecular recognition site; other site 338969002508 dimerization interface [polypeptide binding]; other site 338969002509 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 338969002510 Walker A motif; other site 338969002511 ATP binding site [chemical binding]; other site 338969002512 Walker B motif; other site 338969002513 arginine finger; other site 338969002514 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969002515 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 338969002516 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 338969002517 binding surface 338969002518 TPR motif; other site 338969002519 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 338969002520 binding surface 338969002521 TPR motif; other site 338969002522 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 338969002523 TPR motif; other site 338969002524 binding surface 338969002525 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 338969002526 TPR motif; other site 338969002527 binding surface 338969002528 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 338969002529 binding surface 338969002530 TPR motif; other site 338969002531 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 338969002532 binding surface 338969002533 TPR motif; other site 338969002534 PqqD family protein, HPr-rel-A system; Region: PqqD_rel_X; TIGR04353 338969002535 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 338969002536 Uncharacterized nucleotidyltransferase; Region: NTP_transf_5; pfam14907 338969002537 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 338969002538 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 338969002539 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 338969002540 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 338969002541 Substrate binding site; other site 338969002542 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 338969002543 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 338969002544 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 338969002545 active site 338969002546 Substrate binding site; other site 338969002547 Mg++ binding site; other site 338969002548 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 338969002549 UDP-glucose 4-epimerase; Region: PLN02240 338969002550 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 338969002551 NAD binding site [chemical binding]; other site 338969002552 homodimer interface [polypeptide binding]; other site 338969002553 active site 338969002554 substrate binding site [chemical binding]; other site 338969002555 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 338969002556 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 338969002557 NADP binding site [chemical binding]; other site 338969002558 active site 338969002559 putative substrate binding site [chemical binding]; other site 338969002560 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 338969002561 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 338969002562 NAD binding site [chemical binding]; other site 338969002563 substrate binding site [chemical binding]; other site 338969002564 homodimer interface [polypeptide binding]; other site 338969002565 active site 338969002566 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 338969002567 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 338969002568 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 338969002569 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 338969002570 active site 338969002571 phosphate binding residues; other site 338969002572 catalytic residues [active] 338969002573 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 338969002574 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 338969002575 23S rRNA interface [nucleotide binding]; other site 338969002576 L3 interface [polypeptide binding]; other site 338969002577 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 338969002578 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 338969002579 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 338969002580 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 338969002581 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 338969002582 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 338969002583 Peptidase family M23; Region: Peptidase_M23; pfam01551 338969002584 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 338969002585 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 338969002586 active site 338969002587 HIGH motif; other site 338969002588 dimer interface [polypeptide binding]; other site 338969002589 KMSKS motif; other site 338969002590 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 338969002591 D-tyrosyl-tRNA(Tyr) deacylase; Provisional; Region: PRK05273 338969002592 putative active site [active] 338969002593 dimerization interface [polypeptide binding]; other site 338969002594 putative tRNAtyr binding site [nucleotide binding]; other site 338969002595 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 338969002596 diiron binding motif [ion binding]; other site 338969002597 OsmC-like protein; Region: OsmC; cl00767 338969002598 threonine dehydratase; Reviewed; Region: PRK09224 338969002599 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 338969002600 tetramer interface [polypeptide binding]; other site 338969002601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969002602 catalytic residue [active] 338969002603 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 338969002604 putative Ile/Val binding site [chemical binding]; other site 338969002605 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 338969002606 putative Ile/Val binding site [chemical binding]; other site 338969002607 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 338969002608 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 338969002609 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 338969002610 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 338969002611 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 338969002612 Ligand Binding Site [chemical binding]; other site 338969002613 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 338969002614 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 338969002615 PhoH-like protein; Region: PhoH; pfam02562 338969002616 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 338969002617 RuvA N terminal domain; Region: RuvA_N; pfam01330 338969002618 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 338969002619 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 338969002620 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 338969002621 NlpC/P60 family; Region: NLPC_P60; pfam00877 338969002622 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 338969002623 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 338969002624 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 338969002625 Dihaem cytochrome c; Region: DHC; pfam09626 338969002626 Dihaem cytochrome c; Region: DHC; pfam09626 338969002627 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 338969002628 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 338969002629 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 338969002630 Sulfite exporter TauE/SafE; Region: TauE; cl19196 338969002631 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 338969002632 DsbD alpha interface [polypeptide binding]; other site 338969002633 catalytic residues [active] 338969002634 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 338969002635 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 338969002636 30S subunit binding site; other site 338969002637 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 338969002638 active site 338969002639 phosphorylation site [posttranslational modification] 338969002640 HPr kinase/phosphorylase; Provisional; Region: PRK05428 338969002641 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 338969002642 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 338969002643 Hpr binding site; other site 338969002644 active site 338969002645 homohexamer subunit interaction site [polypeptide binding]; other site 338969002646 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 338969002647 metal binding site 2 [ion binding]; metal-binding site 338969002648 putative DNA binding helix; other site 338969002649 metal binding site 1 [ion binding]; metal-binding site 338969002650 dimer interface [polypeptide binding]; other site 338969002651 structural Zn2+ binding site [ion binding]; other site 338969002652 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 338969002653 dihydrodipicolinate reductase; Provisional; Region: PRK00048 338969002654 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 338969002655 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 338969002656 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338969002657 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 338969002658 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 338969002659 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 338969002660 HIGH motif; other site 338969002661 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 338969002662 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338969002663 active site 338969002664 KMSKS motif; other site 338969002665 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 338969002666 tRNA binding surface [nucleotide binding]; other site 338969002667 Lipopolysaccharide-assembly; Region: LptE; pfam04390 338969002668 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 338969002669 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 338969002670 Processivity clamp loader gamma complex DNA pol III C-term; Region: DNA_pol3_delt_C; pfam14840 338969002671 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 338969002672 putative catalytic cysteine [active] 338969002673 Cytochrome c; Region: Cytochrom_C; cl11414 338969002674 Glutamate-cysteine ligase; Region: GshA; pfam08886 338969002675 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 338969002676 glutathione synthetase; Provisional; Region: PRK05246 338969002677 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 338969002678 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 338969002679 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 338969002680 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 338969002681 putative active site [active] 338969002682 putative dimer interface [polypeptide binding]; other site 338969002683 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 338969002684 Coenzyme A transferase; Region: CoA_trans; smart00882 338969002685 Coenzyme A transferase; Region: CoA_trans; cl17247 338969002686 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 338969002687 putative active site [active] 338969002688 YdjC motif; other site 338969002689 Mg binding site [ion binding]; other site 338969002690 putative homodimer interface [polypeptide binding]; other site 338969002691 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 338969002692 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 338969002693 GtrA-like protein; Region: GtrA; pfam04138 338969002694 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 338969002695 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 338969002696 Ligand binding site; other site 338969002697 Putative Catalytic site; other site 338969002698 DXD motif; other site 338969002699 psiF repeat; Region: PsiF_repeat; pfam07769 338969002700 psiF repeat; Region: PsiF_repeat; pfam07769 338969002701 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 338969002702 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 338969002703 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 338969002704 active site 338969002705 HIGH motif; other site 338969002706 KMSK motif region; other site 338969002707 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 338969002708 tRNA binding surface [nucleotide binding]; other site 338969002709 anticodon binding site; other site 338969002710 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 338969002711 Sporulation related domain; Region: SPOR; pfam05036 338969002712 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 338969002713 catalytic residues [active] 338969002714 hinge region; other site 338969002715 alpha helical domain; other site 338969002716 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 338969002717 OstA-like protein; Region: OstA; pfam03968 338969002718 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 338969002719 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 338969002720 Walker A/P-loop; other site 338969002721 ATP binding site [chemical binding]; other site 338969002722 Q-loop/lid; other site 338969002723 ABC transporter signature motif; other site 338969002724 Walker B; other site 338969002725 D-loop; other site 338969002726 H-loop/switch region; other site 338969002727 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 338969002728 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 338969002729 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 338969002730 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 338969002731 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 338969002732 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 338969002733 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 338969002734 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 338969002735 PIN domain; Region: PIN_3; pfam13470 338969002736 Histidine kinase; Region: HisKA_3; pfam07730 338969002737 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 338969002738 Mg2+ binding site [ion binding]; other site 338969002739 G-X-G motif; other site 338969002740 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969002741 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 338969002742 active site 338969002743 phosphorylation site [posttranslational modification] 338969002744 intermolecular recognition site; other site 338969002745 dimerization interface [polypeptide binding]; other site 338969002746 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 338969002747 DNA binding residues [nucleotide binding] 338969002748 dimerization interface [polypeptide binding]; other site 338969002749 PAP2 superfamily; Region: PAP2_3; pfam14378 338969002750 active site 338969002751 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 338969002752 S-adenosylmethionine binding site [chemical binding]; other site 338969002753 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 338969002754 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969002755 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 338969002756 active site 338969002757 phosphorylation site [posttranslational modification] 338969002758 intermolecular recognition site; other site 338969002759 dimerization interface [polypeptide binding]; other site 338969002760 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 338969002761 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 338969002762 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 338969002763 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 338969002764 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 338969002765 AAA domain; Region: AAA_18; pfam13238 338969002766 Walker A motif; other site 338969002767 ATP binding site [chemical binding]; other site 338969002768 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 338969002769 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 338969002770 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 338969002771 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338969002772 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 338969002773 TadE-like protein; Region: TadE; pfam07811 338969002774 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 338969002775 TadE-like protein; Region: TadE; pfam07811 338969002776 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 338969002777 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 338969002778 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 338969002779 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 338969002780 ATP binding site [chemical binding]; other site 338969002781 Walker A motif; other site 338969002782 hexamer interface [polypeptide binding]; other site 338969002783 Walker B motif; other site 338969002784 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 338969002785 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 338969002786 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 338969002787 binding surface 338969002788 TPR motif; other site 338969002789 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 338969002790 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 338969002791 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 338969002792 active site 338969002793 FMN binding site [chemical binding]; other site 338969002794 substrate binding site [chemical binding]; other site 338969002795 3Fe-4S cluster binding site [ion binding]; other site 338969002796 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 338969002797 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 338969002798 SEC-C motif; Region: SEC-C; cl19389 338969002799 Pirin-related protein [General function prediction only]; Region: COG1741 338969002800 Pirin; Region: Pirin; pfam02678 338969002801 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 338969002802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969002803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969002804 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 338969002805 putative effector binding pocket; other site 338969002806 dimerization interface [polypeptide binding]; other site 338969002807 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969002808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969002809 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 338969002810 putative effector binding pocket; other site 338969002811 dimerization interface [polypeptide binding]; other site 338969002812 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 338969002813 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 338969002814 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338969002815 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 338969002816 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 338969002817 Uncharacterized conserved protein [Function unknown]; Region: COG1565 338969002818 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 338969002819 short chain dehydrogenase; Provisional; Region: PRK09134 338969002820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969002821 NAD(P) binding site [chemical binding]; other site 338969002822 active site 338969002823 Dihydroneopterin aldolase; Region: FolB; smart00905 338969002824 active site 338969002825 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 338969002826 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 338969002827 Ligand Binding Site [chemical binding]; other site 338969002828 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 338969002829 catalytic core [active] 338969002830 YhhN-like protein; Region: YhhN; pfam07947 338969002831 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 338969002832 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 338969002833 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 338969002834 motif II; other site 338969002835 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 338969002836 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 338969002837 Walker A motif; other site 338969002838 ATP binding site [chemical binding]; other site 338969002839 Walker B motif; other site 338969002840 arginine finger; other site 338969002841 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 338969002842 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 338969002843 substrate binding site [chemical binding]; other site 338969002844 active site 338969002845 primosome assembly protein PriA; Validated; Region: PRK05580 338969002846 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 338969002847 ATP binding site [chemical binding]; other site 338969002848 putative Mg++ binding site [ion binding]; other site 338969002849 helicase superfamily c-terminal domain; Region: HELICc; smart00490 338969002850 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 338969002851 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 338969002852 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 338969002853 FAD binding domain; Region: FAD_binding_4; pfam01565 338969002854 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 338969002855 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 338969002856 S-adenosylmethionine binding site [chemical binding]; other site 338969002857 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 338969002858 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 338969002859 active site 338969002860 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 338969002861 catalytic triad [active] 338969002862 metal binding site [ion binding]; metal-binding site 338969002863 conserved cis-peptide bond; other site 338969002864 hypothetical protein; Provisional; Region: PRK08609 338969002865 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 338969002866 active site 338969002867 primer binding site [nucleotide binding]; other site 338969002868 NTP binding site [chemical binding]; other site 338969002869 metal binding triad [ion binding]; metal-binding site 338969002870 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 338969002871 active site 338969002872 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 338969002873 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 338969002874 HSP70 interaction site [polypeptide binding]; other site 338969002875 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 338969002876 Zn binding sites [ion binding]; other site 338969002877 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 338969002878 dimer interface [polypeptide binding]; other site 338969002879 AAA domain; Region: AAA_32; pfam13654 338969002880 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338969002881 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 338969002882 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338969002883 nucleotide binding site [chemical binding]; other site 338969002884 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338969002885 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 338969002886 putative dimer interface [polypeptide binding]; other site 338969002887 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338969002888 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 338969002889 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 338969002890 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 338969002891 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 338969002892 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 338969002893 putative active site pocket [active] 338969002894 metal binding site [ion binding]; metal-binding site 338969002895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969002896 cell density-dependent motility repressor; Provisional; Region: PRK10082 338969002897 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 338969002898 dimerization interface [polypeptide binding]; other site 338969002899 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 338969002900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969002901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969002902 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 338969002903 dimerization interface [polypeptide binding]; other site 338969002904 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 338969002905 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 338969002906 putative active site [active] 338969002907 catalytic triad [active] 338969002908 dimer interface [polypeptide binding]; other site 338969002909 lytic murein transglycosylase; Region: MltB_2; TIGR02283 338969002910 Transglycosylase SLT domain; Region: SLT_2; pfam13406 338969002911 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 338969002912 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969002913 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 338969002914 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 338969002915 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 338969002916 active site 338969002917 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 338969002918 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 338969002919 DNA binding residues [nucleotide binding] 338969002920 dimer interface [polypeptide binding]; other site 338969002921 putative metal binding site [ion binding]; other site 338969002922 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 338969002923 metal-binding site [ion binding] 338969002924 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338969002925 Heavy-metal-associated domain; Region: HMA; pfam00403 338969002926 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338969002927 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 338969002928 motif II; other site 338969002929 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 338969002930 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 338969002931 putative substrate translocation pore; other site 338969002932 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 338969002933 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 338969002934 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 338969002935 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 338969002936 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338969002937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969002938 Walker A/P-loop; other site 338969002939 ATP binding site [chemical binding]; other site 338969002940 Q-loop/lid; other site 338969002941 ABC transporter signature motif; other site 338969002942 Walker B; other site 338969002943 D-loop; other site 338969002944 H-loop/switch region; other site 338969002945 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338969002946 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338969002947 Walker A/P-loop; other site 338969002948 ATP binding site [chemical binding]; other site 338969002949 Q-loop/lid; other site 338969002950 ABC transporter signature motif; other site 338969002951 Walker B; other site 338969002952 D-loop; other site 338969002953 H-loop/switch region; other site 338969002954 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 338969002955 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 338969002956 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 338969002957 HemX; Region: HemX; cl19375 338969002958 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969002959 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 338969002960 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 338969002961 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 338969002962 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 338969002963 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 338969002964 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 338969002965 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 338969002966 catalytic loop [active] 338969002967 iron binding site [ion binding]; other site 338969002968 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 338969002969 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 338969002970 FMN binding site [chemical binding]; other site 338969002971 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 338969002972 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 338969002973 XdhC Rossmann domain; Region: XdhC_C; pfam13478 338969002974 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 338969002975 Ligand binding site; other site 338969002976 metal-binding site 338969002977 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 338969002978 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338969002979 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 338969002980 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 338969002981 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 338969002982 carboxyltransferase (CT) interaction site; other site 338969002983 biotinylation site [posttranslational modification]; other site 338969002984 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 338969002985 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 338969002986 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 338969002987 putative active site [active] 338969002988 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 338969002989 putative substrate binding pocket [chemical binding]; other site 338969002990 AC domain interface; other site 338969002991 catalytic triad [active] 338969002992 AB domain interface; other site 338969002993 interchain disulfide; other site 338969002994 Protein of unknown function (DUF979); Region: DUF979; pfam06166 338969002995 Protein of unknown function (DUF969); Region: DUF969; pfam06149 338969002996 Transcriptional regulators [Transcription]; Region: GntR; COG1802 338969002997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969002998 DNA-binding site [nucleotide binding]; DNA binding site 338969002999 FCD domain; Region: FCD; pfam07729 338969003000 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 338969003001 dimerization interface [polypeptide binding]; other site 338969003002 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 338969003003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969003004 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 338969003005 dimerization interface [polypeptide binding]; other site 338969003006 substrate binding pocket [chemical binding]; other site 338969003007 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 338969003008 tetrameric interface [polypeptide binding]; other site 338969003009 NAD binding site [chemical binding]; other site 338969003010 catalytic residues [active] 338969003011 aspartate aminotransferase; Provisional; Region: PRK05764 338969003012 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 338969003013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969003014 homodimer interface [polypeptide binding]; other site 338969003015 catalytic residue [active] 338969003016 thiamine pyrophosphate protein; Validated; Region: PRK08199 338969003017 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338969003018 PYR/PP interface [polypeptide binding]; other site 338969003019 dimer interface [polypeptide binding]; other site 338969003020 TPP binding site [chemical binding]; other site 338969003021 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338969003022 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 338969003023 TPP-binding site [chemical binding]; other site 338969003024 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 338969003025 FAD dependent oxidoreductase; Region: DAO; pfam01266 338969003026 Squalene epoxidase; Region: SE; cl17314 338969003027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969003028 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 338969003029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338969003030 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 338969003031 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 338969003032 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 338969003033 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 338969003034 dimer interface [polypeptide binding]; other site 338969003035 conserved gate region; other site 338969003036 putative PBP binding loops; other site 338969003037 ABC-ATPase subunit interface; other site 338969003038 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 338969003039 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 338969003040 dimer interface [polypeptide binding]; other site 338969003041 conserved gate region; other site 338969003042 putative PBP binding loops; other site 338969003043 ABC-ATPase subunit interface; other site 338969003044 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 338969003045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969003046 Walker A/P-loop; other site 338969003047 ATP binding site [chemical binding]; other site 338969003048 Q-loop/lid; other site 338969003049 ABC transporter signature motif; other site 338969003050 Walker B; other site 338969003051 D-loop; other site 338969003052 H-loop/switch region; other site 338969003053 TOBE domain; Region: TOBE_2; pfam08402 338969003054 Transcriptional regulator [Transcription]; Region: IclR; COG1414 338969003055 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 338969003056 putative DNA binding site [nucleotide binding]; other site 338969003057 putative Zn2+ binding site [ion binding]; other site 338969003058 Bacterial transcriptional regulator; Region: IclR; pfam01614 338969003059 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969003060 Zn2+ binding site [ion binding]; other site 338969003061 Mg2+ binding site [ion binding]; other site 338969003062 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969003063 Zn2+ binding site [ion binding]; other site 338969003064 Mg2+ binding site [ion binding]; other site 338969003065 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 338969003066 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 338969003067 active site 338969003068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969003069 phosphorylation site [posttranslational modification] 338969003070 intermolecular recognition site; other site 338969003071 dimerization interface [polypeptide binding]; other site 338969003072 Histidine kinase; Region: HisKA_3; pfam07730 338969003073 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 338969003074 ATP binding site [chemical binding]; other site 338969003075 Mg2+ binding site [ion binding]; other site 338969003076 G-X-G motif; other site 338969003077 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969003078 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 338969003079 active site 338969003080 phosphorylation site [posttranslational modification] 338969003081 intermolecular recognition site; other site 338969003082 dimerization interface [polypeptide binding]; other site 338969003083 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 338969003084 DNA binding residues [nucleotide binding] 338969003085 dimerization interface [polypeptide binding]; other site 338969003086 response regulator PleD; Reviewed; Region: pleD; PRK09581 338969003087 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 338969003088 active site 338969003089 phosphorylation site [posttranslational modification] 338969003090 intermolecular recognition site; other site 338969003091 dimerization interface [polypeptide binding]; other site 338969003092 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969003093 putative active site [active] 338969003094 heme pocket [chemical binding]; other site 338969003095 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969003096 metal binding site [ion binding]; metal-binding site 338969003097 active site 338969003098 I-site; other site 338969003099 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969003100 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 338969003101 dimerization interface [polypeptide binding]; other site 338969003102 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969003103 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338969003104 putative active site [active] 338969003105 heme pocket [chemical binding]; other site 338969003106 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969003107 putative active site [active] 338969003108 heme pocket [chemical binding]; other site 338969003109 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 338969003110 Histidine kinase; Region: HisKA_2; pfam07568 338969003111 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 338969003112 ATP binding site [chemical binding]; other site 338969003113 Mg2+ binding site [ion binding]; other site 338969003114 G-X-G motif; other site 338969003115 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969003116 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 338969003117 active site 338969003118 phosphorylation site [posttranslational modification] 338969003119 intermolecular recognition site; other site 338969003120 dimerization interface [polypeptide binding]; other site 338969003121 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 338969003122 dimer interface [polypeptide binding]; other site 338969003123 putative CheW interface [polypeptide binding]; other site 338969003124 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 338969003125 active site 338969003126 phosphorylation site [posttranslational modification] 338969003127 intermolecular recognition site; other site 338969003128 dimerization interface [polypeptide binding]; other site 338969003129 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 338969003130 anti sigma factor interaction site; other site 338969003131 regulatory phosphorylation site [posttranslational modification]; other site 338969003132 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 338969003133 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338969003134 putative binding surface; other site 338969003135 active site 338969003136 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338969003137 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 338969003138 ATP binding site [chemical binding]; other site 338969003139 Mg2+ binding site [ion binding]; other site 338969003140 G-X-G motif; other site 338969003141 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 338969003142 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969003143 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338969003144 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 338969003145 dimerization interface [polypeptide binding]; other site 338969003146 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969003147 dimer interface [polypeptide binding]; other site 338969003148 putative CheW interface [polypeptide binding]; other site 338969003149 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 338969003150 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338969003151 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 338969003152 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 338969003153 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 338969003154 CheD chemotactic sensory transduction; Region: CheD; cl00810 338969003155 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 338969003156 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 338969003157 active site 338969003158 phosphorylation site [posttranslational modification] 338969003159 intermolecular recognition site; other site 338969003160 dimerization interface [polypeptide binding]; other site 338969003161 CheB methylesterase; Region: CheB_methylest; pfam01339 338969003162 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 338969003163 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969003164 putative substrate translocation pore; other site 338969003165 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 338969003166 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 338969003167 active site 338969003168 nucleophile elbow; other site 338969003169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969003170 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969003171 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 338969003172 putative effector binding pocket; other site 338969003173 putative dimerization interface [polypeptide binding]; other site 338969003174 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 338969003175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969003176 NAD(P) binding site [chemical binding]; other site 338969003177 active site 338969003178 Uncharacterized conserved protein [Function unknown]; Region: COG2353 338969003179 Cytochrome c553 [Energy production and conversion]; Region: COG2863 338969003180 Cytochrome c; Region: Cytochrom_C; cl11414 338969003181 DoxX; Region: DoxX; pfam07681 338969003182 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 338969003183 Ligand Binding Site [chemical binding]; other site 338969003184 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 338969003185 Transglycosylase; Region: Transgly; pfam00912 338969003186 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 338969003187 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 338969003188 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 338969003189 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 338969003190 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 338969003191 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 338969003192 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 338969003193 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 338969003194 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 338969003195 active site 338969003196 phosphorylation site [posttranslational modification] 338969003197 intermolecular recognition site; other site 338969003198 dimerization interface [polypeptide binding]; other site 338969003199 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 338969003200 DNA binding residues [nucleotide binding] 338969003201 dimerization interface [polypeptide binding]; other site 338969003202 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 338969003203 PAS domain S-box; Region: sensory_box; TIGR00229 338969003204 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969003205 putative active site [active] 338969003206 heme pocket [chemical binding]; other site 338969003207 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 338969003208 dimer interface [polypeptide binding]; other site 338969003209 phosphorylation site [posttranslational modification] 338969003210 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 338969003211 ATP binding site [chemical binding]; other site 338969003212 Mg2+ binding site [ion binding]; other site 338969003213 G-X-G motif; other site 338969003214 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 338969003215 anion transporter; Region: dass; TIGR00785 338969003216 transmembrane helices; other site 338969003217 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 338969003218 putative CheA interaction surface; other site 338969003219 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969003220 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338969003221 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 338969003222 dimerization interface [polypeptide binding]; other site 338969003223 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969003224 dimer interface [polypeptide binding]; other site 338969003225 putative CheW interface [polypeptide binding]; other site 338969003226 Chemoreceptor zinc-binding domain; Region: CZB; pfam13682 338969003227 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 338969003228 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 338969003229 active site 338969003230 putative substrate binding pocket [chemical binding]; other site 338969003231 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 338969003232 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 338969003233 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 338969003234 putative active site [active] 338969003235 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 338969003236 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 338969003237 dimer interface [polypeptide binding]; other site 338969003238 active site 338969003239 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338969003240 substrate binding site [chemical binding]; other site 338969003241 catalytic residue [active] 338969003242 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 338969003243 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969003244 Walker A/P-loop; other site 338969003245 ATP binding site [chemical binding]; other site 338969003246 Q-loop/lid; other site 338969003247 ABC transporter signature motif; other site 338969003248 Walker B; other site 338969003249 D-loop; other site 338969003250 H-loop/switch region; other site 338969003251 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969003252 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 338969003253 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969003254 Walker A/P-loop; other site 338969003255 ATP binding site [chemical binding]; other site 338969003256 Q-loop/lid; other site 338969003257 ABC transporter signature motif; other site 338969003258 Walker B; other site 338969003259 D-loop; other site 338969003260 H-loop/switch region; other site 338969003261 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969003262 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 338969003263 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 338969003264 dimer interface [polypeptide binding]; other site 338969003265 conserved gate region; other site 338969003266 putative PBP binding loops; other site 338969003267 ABC-ATPase subunit interface; other site 338969003268 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 338969003269 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 338969003270 dimer interface [polypeptide binding]; other site 338969003271 conserved gate region; other site 338969003272 putative PBP binding loops; other site 338969003273 ABC-ATPase subunit interface; other site 338969003274 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 338969003275 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 338969003276 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 338969003277 homotrimer interaction site [polypeptide binding]; other site 338969003278 putative active site [active] 338969003279 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 338969003280 substrate binding site [chemical binding]; other site 338969003281 ATP binding site [chemical binding]; other site 338969003282 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 338969003283 Entner-Doudoroff aldolase; Region: eda; TIGR01182 338969003284 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 338969003285 active site 338969003286 intersubunit interface [polypeptide binding]; other site 338969003287 catalytic residue [active] 338969003288 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; cl18945 338969003289 catalytic residue [active] 338969003290 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 338969003291 Transposase domain (DUF772); Region: DUF772; pfam05598 338969003292 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338969003293 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 338969003294 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338969003295 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 338969003296 catalytic residues [active] 338969003297 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 338969003298 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 338969003299 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 338969003300 mannonate dehydratase; Provisional; Region: PRK03906 338969003301 D-mannonate dehydratase (UxuA); Region: UxuA; pfam03786 338969003302 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 338969003303 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 338969003304 active site 338969003305 intersubunit interface [polypeptide binding]; other site 338969003306 catalytic residue [active] 338969003307 galactonate dehydratase; Provisional; Region: PRK14017 338969003308 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 338969003309 putative active site pocket [active] 338969003310 putative metal binding site [ion binding]; other site 338969003311 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 338969003312 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 338969003313 dimer interface [polypeptide binding]; other site 338969003314 conserved gate region; other site 338969003315 putative PBP binding loops; other site 338969003316 ABC-ATPase subunit interface; other site 338969003317 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 338969003318 dimer interface [polypeptide binding]; other site 338969003319 conserved gate region; other site 338969003320 putative PBP binding loops; other site 338969003321 ABC-ATPase subunit interface; other site 338969003322 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 338969003323 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 338969003324 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 338969003325 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 338969003326 Walker A/P-loop; other site 338969003327 ATP binding site [chemical binding]; other site 338969003328 Q-loop/lid; other site 338969003329 ABC transporter signature motif; other site 338969003330 Walker B; other site 338969003331 D-loop; other site 338969003332 H-loop/switch region; other site 338969003333 TOBE domain; Region: TOBE_2; pfam08402 338969003334 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 338969003335 AAA domain; Region: AAA_33; pfam13671 338969003336 ATP-binding site [chemical binding]; other site 338969003337 Gluconate-6-phosphate binding site [chemical binding]; other site 338969003338 Transcriptional regulators [Transcription]; Region: PurR; COG1609 338969003339 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 338969003340 DNA binding site [nucleotide binding] 338969003341 domain linker motif; other site 338969003342 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 338969003343 putative ligand binding site [chemical binding]; other site 338969003344 putative dimerization interface [polypeptide binding]; other site 338969003345 B12 binding domain; Region: B12-binding; pfam02310 338969003346 B12 binding site [chemical binding]; other site 338969003347 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 338969003348 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338969003349 FeS/SAM binding site; other site 338969003350 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 338969003351 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 338969003352 putative substrate translocation pore; other site 338969003353 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969003354 Entner-Doudoroff aldolase; Region: eda; TIGR01182 338969003355 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 338969003356 active site 338969003357 intersubunit interface [polypeptide binding]; other site 338969003358 catalytic residue [active] 338969003359 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 338969003360 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 338969003361 substrate binding site [chemical binding]; other site 338969003362 ATP binding site [chemical binding]; other site 338969003363 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 338969003364 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 338969003365 dimer interface [polypeptide binding]; other site 338969003366 active site 338969003367 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338969003368 substrate binding site [chemical binding]; other site 338969003369 catalytic residue [active] 338969003370 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 338969003371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969003372 substrate binding pocket [chemical binding]; other site 338969003373 membrane-bound complex binding site; other site 338969003374 hinge residues; other site 338969003375 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969003376 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 338969003377 dimer interface [polypeptide binding]; other site 338969003378 conserved gate region; other site 338969003379 putative PBP binding loops; other site 338969003380 ABC-ATPase subunit interface; other site 338969003381 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969003382 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 338969003383 dimer interface [polypeptide binding]; other site 338969003384 conserved gate region; other site 338969003385 putative PBP binding loops; other site 338969003386 ABC-ATPase subunit interface; other site 338969003387 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969003388 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969003389 Walker A/P-loop; other site 338969003390 ATP binding site [chemical binding]; other site 338969003391 Q-loop/lid; other site 338969003392 ABC transporter signature motif; other site 338969003393 Walker B; other site 338969003394 D-loop; other site 338969003395 H-loop/switch region; other site 338969003396 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 338969003397 homotrimer interaction site [polypeptide binding]; other site 338969003398 putative active site [active] 338969003399 Transcriptional regulator [Transcription]; Region: IclR; COG1414 338969003400 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 338969003401 H+ Antiporter protein; Region: 2A0121; TIGR00900 338969003402 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 338969003403 putative substrate translocation pore; other site 338969003404 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 338969003405 CoenzymeA binding site [chemical binding]; other site 338969003406 subunit interaction site [polypeptide binding]; other site 338969003407 PHB binding site; other site 338969003408 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 338969003409 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; cl19124 338969003410 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 338969003411 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 338969003412 dimer interface [polypeptide binding]; other site 338969003413 active site 338969003414 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338969003415 substrate binding site [chemical binding]; other site 338969003416 catalytic residue [active] 338969003417 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 338969003418 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 338969003419 active site 338969003420 putative substrate binding pocket [chemical binding]; other site 338969003421 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338969003422 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 338969003423 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 338969003424 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 338969003425 intersubunit interface [polypeptide binding]; other site 338969003426 active site 338969003427 Zn2+ binding site [ion binding]; other site 338969003428 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 338969003429 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969003430 Walker A/P-loop; other site 338969003431 ATP binding site [chemical binding]; other site 338969003432 Q-loop/lid; other site 338969003433 ABC transporter signature motif; other site 338969003434 Walker B; other site 338969003435 D-loop; other site 338969003436 H-loop/switch region; other site 338969003437 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969003438 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 338969003439 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969003440 Walker A/P-loop; other site 338969003441 ATP binding site [chemical binding]; other site 338969003442 Q-loop/lid; other site 338969003443 ABC transporter signature motif; other site 338969003444 Walker B; other site 338969003445 D-loop; other site 338969003446 H-loop/switch region; other site 338969003447 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969003448 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 338969003449 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 338969003450 dimer interface [polypeptide binding]; other site 338969003451 conserved gate region; other site 338969003452 putative PBP binding loops; other site 338969003453 ABC-ATPase subunit interface; other site 338969003454 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 338969003455 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 338969003456 dimer interface [polypeptide binding]; other site 338969003457 conserved gate region; other site 338969003458 putative PBP binding loops; other site 338969003459 ABC-ATPase subunit interface; other site 338969003460 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 338969003461 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 338969003462 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 338969003463 NAD(P) binding site [chemical binding]; other site 338969003464 catalytic residues [active] 338969003465 catalytic residues [active] 338969003466 cell density-dependent motility repressor; Provisional; Region: PRK10082 338969003467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969003468 LysR substrate binding domain; Region: LysR_substrate; pfam03466 338969003469 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 338969003470 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 338969003471 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969003472 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 338969003473 dimerization interface [polypeptide binding]; other site 338969003474 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969003475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969003476 dimer interface [polypeptide binding]; other site 338969003477 putative CheW interface [polypeptide binding]; other site 338969003478 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 338969003479 putative CheA interaction surface; other site 338969003480 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969003481 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969003482 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969003483 active site 338969003484 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 338969003485 enoyl-CoA hydratase; Provisional; Region: PRK08258 338969003486 substrate binding site [chemical binding]; other site 338969003487 oxyanion hole (OAH) forming residues; other site 338969003488 trimer interface [polypeptide binding]; other site 338969003489 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 338969003490 AAA ATPase domain; Region: AAA_16; pfam13191 338969003491 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 338969003492 DNA binding residues [nucleotide binding] 338969003493 dimerization interface [polypeptide binding]; other site 338969003494 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 338969003495 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 338969003496 active site 338969003497 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 338969003498 catalytic triad [active] 338969003499 dimer interface [polypeptide binding]; other site 338969003500 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 338969003501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969003502 NAD(P) binding site [chemical binding]; other site 338969003503 active site 338969003504 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 338969003505 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969003506 dimer interface [polypeptide binding]; other site 338969003507 active site 338969003508 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969003509 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969003510 Walker A/P-loop; other site 338969003511 ATP binding site [chemical binding]; other site 338969003512 Q-loop/lid; other site 338969003513 ABC transporter signature motif; other site 338969003514 Walker B; other site 338969003515 D-loop; other site 338969003516 H-loop/switch region; other site 338969003517 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969003518 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969003519 Walker A/P-loop; other site 338969003520 ATP binding site [chemical binding]; other site 338969003521 Q-loop/lid; other site 338969003522 ABC transporter signature motif; other site 338969003523 Walker B; other site 338969003524 D-loop; other site 338969003525 H-loop/switch region; other site 338969003526 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969003527 TM-ABC transporter signature motif; other site 338969003528 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969003529 TM-ABC transporter signature motif; other site 338969003530 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 338969003531 putative ligand binding site [chemical binding]; other site 338969003532 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 338969003533 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 338969003534 dimer interface [polypeptide binding]; other site 338969003535 acyl-activating enzyme (AAE) consensus motif; other site 338969003536 putative active site [active] 338969003537 AMP binding site [chemical binding]; other site 338969003538 putative CoA binding site [chemical binding]; other site 338969003539 enoyl-CoA hydratase; Provisional; Region: PRK06688 338969003540 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 338969003541 substrate binding site [chemical binding]; other site 338969003542 oxyanion hole (OAH) forming residues; other site 338969003543 trimer interface [polypeptide binding]; other site 338969003544 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 338969003545 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 338969003546 FMN binding site [chemical binding]; other site 338969003547 substrate binding site [chemical binding]; other site 338969003548 putative catalytic residue [active] 338969003549 enoyl-CoA hydratase; Provisional; Region: PRK08140 338969003550 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 338969003551 substrate binding site [chemical binding]; other site 338969003552 oxyanion hole (OAH) forming residues; other site 338969003553 trimer interface [polypeptide binding]; other site 338969003554 enoyl-CoA hydratase; Provisional; Region: PRK08260 338969003555 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 338969003556 substrate binding site [chemical binding]; other site 338969003557 oxyanion hole (OAH) forming residues; other site 338969003558 trimer interface [polypeptide binding]; other site 338969003559 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969003560 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969003561 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 338969003562 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969003563 acyl-activating enzyme (AAE) consensus motif; other site 338969003564 AMP binding site [chemical binding]; other site 338969003565 active site 338969003566 CoA binding site [chemical binding]; other site 338969003567 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 338969003568 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969003569 putative ligand binding site [chemical binding]; other site 338969003570 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969003571 TM-ABC transporter signature motif; other site 338969003572 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969003573 TM-ABC transporter signature motif; other site 338969003574 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969003575 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969003576 Walker A/P-loop; other site 338969003577 ATP binding site [chemical binding]; other site 338969003578 Q-loop/lid; other site 338969003579 ABC transporter signature motif; other site 338969003580 Walker B; other site 338969003581 D-loop; other site 338969003582 H-loop/switch region; other site 338969003583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969003584 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 338969003585 Walker A/P-loop; other site 338969003586 ATP binding site [chemical binding]; other site 338969003587 Q-loop/lid; other site 338969003588 ABC transporter signature motif; other site 338969003589 Walker B; other site 338969003590 D-loop; other site 338969003591 H-loop/switch region; other site 338969003592 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 338969003593 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969003594 acyl-activating enzyme (AAE) consensus motif; other site 338969003595 AMP binding site [chemical binding]; other site 338969003596 active site 338969003597 CoA binding site [chemical binding]; other site 338969003598 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 338969003599 putative active site [active] 338969003600 putative substrate binding site [chemical binding]; other site 338969003601 ATP binding site [chemical binding]; other site 338969003602 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969003603 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969003604 active site 338969003605 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 338969003606 Ligand Binding Site [chemical binding]; other site 338969003607 Uncharacterized protein conserved in archaea (DUF2111); Region: DUF2111; cl01667 338969003608 PAS domain S-box; Region: sensory_box; TIGR00229 338969003609 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969003610 putative active site [active] 338969003611 heme pocket [chemical binding]; other site 338969003612 PAS domain; Region: PAS_9; pfam13426 338969003613 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969003614 putative active site [active] 338969003615 heme pocket [chemical binding]; other site 338969003616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969003617 metal binding site [ion binding]; metal-binding site 338969003618 active site 338969003619 I-site; other site 338969003620 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969003621 H+ Antiporter protein; Region: 2A0121; TIGR00900 338969003622 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 338969003623 putative substrate translocation pore; other site 338969003624 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 338969003625 NAD(P) binding site [chemical binding]; other site 338969003626 catalytic residues [active] 338969003627 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 338969003628 inhibitor site; inhibition site 338969003629 active site 338969003630 dimer interface [polypeptide binding]; other site 338969003631 catalytic residue [active] 338969003632 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 338969003633 galactarate dehydratase; Region: galactar-dH20; TIGR03248 338969003634 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 338969003635 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338969003636 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 338969003637 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 338969003638 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 338969003639 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969003640 substrate binding pocket [chemical binding]; other site 338969003641 membrane-bound complex binding site; other site 338969003642 hinge residues; other site 338969003643 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969003644 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969003645 Walker A/P-loop; other site 338969003646 ATP binding site [chemical binding]; other site 338969003647 Q-loop/lid; other site 338969003648 ABC transporter signature motif; other site 338969003649 Walker B; other site 338969003650 D-loop; other site 338969003651 H-loop/switch region; other site 338969003652 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969003653 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 338969003654 dimer interface [polypeptide binding]; other site 338969003655 conserved gate region; other site 338969003656 putative PBP binding loops; other site 338969003657 ABC-ATPase subunit interface; other site 338969003658 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969003659 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 338969003660 dimer interface [polypeptide binding]; other site 338969003661 conserved gate region; other site 338969003662 putative PBP binding loops; other site 338969003663 ABC-ATPase subunit interface; other site 338969003664 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969003665 DNA-binding site [nucleotide binding]; DNA binding site 338969003666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 338969003667 DNA-binding site [nucleotide binding]; DNA binding site 338969003668 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 338969003669 FCD domain; Region: FCD; pfam07729 338969003670 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 338969003671 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969003672 dimer interface [polypeptide binding]; other site 338969003673 active site 338969003674 Coenzyme A transferase; Region: CoA_trans; cl17247 338969003675 Coenzyme A transferase; Region: CoA_trans; cl17247 338969003676 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 338969003677 homodimer interface [polypeptide binding]; other site 338969003678 substrate-cofactor binding pocket; other site 338969003679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969003680 catalytic residue [active] 338969003681 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 338969003682 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 338969003683 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 338969003684 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 338969003685 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 338969003686 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 338969003687 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 338969003688 inhibitor-cofactor binding pocket; inhibition site 338969003689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969003690 catalytic residue [active] 338969003691 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 338969003692 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 338969003693 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 338969003694 putative active site [active] 338969003695 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338969003696 Helix-turn-helix domain; Region: HTH_37; pfam13744 338969003697 PEP-CTERM motif; Region: VPEP; pfam07589 338969003698 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 338969003699 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 338969003700 active site 338969003701 Zn binding site [ion binding]; other site 338969003702 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 338969003703 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 338969003704 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 338969003705 AAA domain; Region: AAA_22; pfam13401 338969003706 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 338969003707 DNA-binding interface [nucleotide binding]; DNA binding site 338969003708 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 338969003709 HsdM N-terminal domain; Region: HsdM_N; pfam12161 338969003710 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338969003711 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338969003712 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 338969003713 Protein of unknown function DUF262; Region: DUF262; pfam03235 338969003714 Uncharacterized conserved protein [Function unknown]; Region: COG3472 338969003715 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 338969003716 Laminin Domain II; Region: Laminin_II; pfam06009 338969003717 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 338969003718 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 338969003719 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 338969003720 ATP binding site [chemical binding]; other site 338969003721 putative Mg++ binding site [ion binding]; other site 338969003722 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 338969003723 nucleotide binding region [chemical binding]; other site 338969003724 Helicase conserved C-terminal domain; Region: Helicase_C; cl17351 338969003725 ATP-binding site [chemical binding]; other site 338969003726 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 338969003727 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 338969003728 dimerization interface [polypeptide binding]; other site 338969003729 active site 338969003730 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 338969003731 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 338969003732 putative uracil binding site [chemical binding]; other site 338969003733 putative active site [active] 338969003734 TIR domain; Region: TIR_2; pfam13676 338969003735 SIR2-like domain; Region: SIR2_2; pfam13289 338969003736 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 338969003737 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969003738 active site 338969003739 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 338969003740 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 338969003741 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 338969003742 glutaminase active site [active] 338969003743 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 338969003744 dimer interface [polypeptide binding]; other site 338969003745 active site 338969003746 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 338969003747 dimer interface [polypeptide binding]; other site 338969003748 active site 338969003749 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969003750 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969003751 Walker A/P-loop; other site 338969003752 ATP binding site [chemical binding]; other site 338969003753 Q-loop/lid; other site 338969003754 ABC transporter signature motif; other site 338969003755 Walker B; other site 338969003756 D-loop; other site 338969003757 H-loop/switch region; other site 338969003758 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969003759 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969003760 Walker A/P-loop; other site 338969003761 ATP binding site [chemical binding]; other site 338969003762 Q-loop/lid; other site 338969003763 ABC transporter signature motif; other site 338969003764 Walker B; other site 338969003765 D-loop; other site 338969003766 H-loop/switch region; other site 338969003767 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 338969003768 putative ligand binding site [chemical binding]; other site 338969003769 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969003770 TM-ABC transporter signature motif; other site 338969003771 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969003772 TM-ABC transporter signature motif; other site 338969003773 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 338969003774 EamA-like transporter family; Region: EamA; pfam00892 338969003775 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 338969003776 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 338969003777 putative DNA binding site [nucleotide binding]; other site 338969003778 putative Zn2+ binding site [ion binding]; other site 338969003779 AsnC family; Region: AsnC_trans_reg; pfam01037 338969003780 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 338969003781 dimer interface [polypeptide binding]; other site 338969003782 phosphorylation site [posttranslational modification] 338969003783 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 338969003784 ATP binding site [chemical binding]; other site 338969003785 Mg2+ binding site [ion binding]; other site 338969003786 G-X-G motif; other site 338969003787 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 338969003788 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 338969003789 Substrate binding site; other site 338969003790 Mg++ binding site; other site 338969003791 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 338969003792 active site 338969003793 substrate binding site [chemical binding]; other site 338969003794 CoA binding site [chemical binding]; other site 338969003795 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 338969003796 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 338969003797 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 338969003798 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 338969003799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969003800 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 338969003801 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 338969003802 dimerization interface [polypeptide binding]; other site 338969003803 substrate binding pocket [chemical binding]; other site 338969003804 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 338969003805 lytic murein transglycosylase; Provisional; Region: PRK11619 338969003806 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 338969003807 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969003808 catalytic residue [active] 338969003809 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 338969003810 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 338969003811 putative C-terminal domain interface [polypeptide binding]; other site 338969003812 putative GSH binding site (G-site) [chemical binding]; other site 338969003813 putative dimer interface [polypeptide binding]; other site 338969003814 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 338969003815 putative N-terminal domain interface [polypeptide binding]; other site 338969003816 putative dimer interface [polypeptide binding]; other site 338969003817 putative substrate binding pocket (H-site) [chemical binding]; other site 338969003818 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 338969003819 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 338969003820 active site 338969003821 NTP binding site [chemical binding]; other site 338969003822 metal binding triad [ion binding]; metal-binding site 338969003823 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 338969003824 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969003825 Zn2+ binding site [ion binding]; other site 338969003826 Mg2+ binding site [ion binding]; other site 338969003827 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969003828 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 338969003829 active site 338969003830 phosphorylation site [posttranslational modification] 338969003831 intermolecular recognition site; other site 338969003832 dimerization interface [polypeptide binding]; other site 338969003833 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 338969003834 DNA binding site [nucleotide binding] 338969003835 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 338969003836 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969003837 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 338969003838 dimer interface [polypeptide binding]; other site 338969003839 phosphorylation site [posttranslational modification] 338969003840 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 338969003841 ATP binding site [chemical binding]; other site 338969003842 Mg2+ binding site [ion binding]; other site 338969003843 G-X-G motif; other site 338969003844 PAS fold; Region: PAS_7; pfam12860 338969003845 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969003846 PAS fold; Region: PAS_3; pfam08447 338969003847 putative active site [active] 338969003848 heme pocket [chemical binding]; other site 338969003849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969003850 metal binding site [ion binding]; metal-binding site 338969003851 active site 338969003852 I-site; other site 338969003853 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969003854 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 338969003855 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 338969003856 Walker A/P-loop; other site 338969003857 ATP binding site [chemical binding]; other site 338969003858 Q-loop/lid; other site 338969003859 ABC transporter signature motif; other site 338969003860 Walker B; other site 338969003861 D-loop; other site 338969003862 H-loop/switch region; other site 338969003863 TOBE domain; Region: TOBE_2; pfam08402 338969003864 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 338969003865 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 338969003866 dimer interface [polypeptide binding]; other site 338969003867 conserved gate region; other site 338969003868 putative PBP binding loops; other site 338969003869 ABC-ATPase subunit interface; other site 338969003870 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 338969003871 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 338969003872 dimer interface [polypeptide binding]; other site 338969003873 conserved gate region; other site 338969003874 putative PBP binding loops; other site 338969003875 ABC-ATPase subunit interface; other site 338969003876 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 338969003877 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 338969003878 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 338969003879 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 338969003880 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 338969003881 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 338969003882 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 338969003883 dimer interface [polypeptide binding]; other site 338969003884 conserved gate region; other site 338969003885 putative PBP binding loops; other site 338969003886 ABC-ATPase subunit interface; other site 338969003887 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 338969003888 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 338969003889 dimer interface [polypeptide binding]; other site 338969003890 conserved gate region; other site 338969003891 putative PBP binding loops; other site 338969003892 ABC-ATPase subunit interface; other site 338969003893 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 338969003894 beta-galactosidase; Region: BGL; TIGR03356 338969003895 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 338969003896 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 338969003897 Walker A/P-loop; other site 338969003898 ATP binding site [chemical binding]; other site 338969003899 Q-loop/lid; other site 338969003900 ABC transporter signature motif; other site 338969003901 Walker B; other site 338969003902 D-loop; other site 338969003903 H-loop/switch region; other site 338969003904 TOBE domain; Region: TOBE_2; pfam08402 338969003905 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 338969003906 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 338969003907 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969003908 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338969003909 Sugar-binding cellulase-like; Region: Cellulase-like; cl19200 338969003910 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 338969003911 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 338969003912 Walker A/P-loop; other site 338969003913 ATP binding site [chemical binding]; other site 338969003914 Q-loop/lid; other site 338969003915 ABC transporter signature motif; other site 338969003916 Walker B; other site 338969003917 D-loop; other site 338969003918 H-loop/switch region; other site 338969003919 TOBE domain; Region: TOBE_2; pfam08402 338969003920 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 338969003921 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 338969003922 dimer interface [polypeptide binding]; other site 338969003923 conserved gate region; other site 338969003924 putative PBP binding loops; other site 338969003925 ABC-ATPase subunit interface; other site 338969003926 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 338969003927 ABC-ATPase subunit interface; other site 338969003928 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 338969003929 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 338969003930 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 338969003931 beta-galactosidase; Region: BGL; TIGR03356 338969003932 Transcriptional regulators [Transcription]; Region: PurR; COG1609 338969003933 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 338969003934 DNA binding site [nucleotide binding] 338969003935 domain linker motif; other site 338969003936 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 338969003937 dimerization interface (closed form) [polypeptide binding]; other site 338969003938 ligand binding site [chemical binding]; other site 338969003939 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 338969003940 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 338969003941 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 338969003942 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 338969003943 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 338969003944 N-terminal plug; other site 338969003945 ligand-binding site [chemical binding]; other site 338969003946 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 338969003947 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 338969003948 active site 338969003949 catalytic site [active] 338969003950 metal binding site [ion binding]; metal-binding site 338969003951 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 338969003952 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 338969003953 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 338969003954 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338969003955 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 338969003956 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338969003957 Cupin domain; Region: Cupin_2; cl17218 338969003958 thioredoxin 2; Provisional; Region: PRK10996 338969003959 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 338969003960 catalytic residues [active] 338969003961 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 338969003962 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 338969003963 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 338969003964 putative active site [active] 338969003965 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 338969003966 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 338969003967 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 338969003968 transaldolase-like protein; Provisional; Region: PTZ00411 338969003969 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 338969003970 active site 338969003971 dimer interface [polypeptide binding]; other site 338969003972 catalytic residue [active] 338969003973 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 338969003974 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 338969003975 active site 338969003976 dimer interface [polypeptide binding]; other site 338969003977 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 338969003978 dimer interface [polypeptide binding]; other site 338969003979 active site 338969003980 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 338969003981 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 338969003982 motif II; other site 338969003983 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969003984 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338969003985 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969003986 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 338969003987 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 338969003988 ring oligomerisation interface [polypeptide binding]; other site 338969003989 ATP/Mg binding site [chemical binding]; other site 338969003990 stacking interactions; other site 338969003991 hinge regions; other site 338969003992 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 338969003993 oligomerisation interface [polypeptide binding]; other site 338969003994 mobile loop; other site 338969003995 roof hairpin; other site 338969003996 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 338969003997 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 338969003998 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 338969003999 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 338969004000 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 338969004001 active site 338969004002 phosphorylation site [posttranslational modification] 338969004003 intermolecular recognition site; other site 338969004004 dimerization interface [polypeptide binding]; other site 338969004005 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 338969004006 DNA binding residues [nucleotide binding] 338969004007 dimerization interface [polypeptide binding]; other site 338969004008 MASE1; Region: MASE1; cl17823 338969004009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 338969004010 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 338969004011 phosphorylation site [posttranslational modification] 338969004012 dimer interface [polypeptide binding]; other site 338969004013 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 338969004014 ATP binding site [chemical binding]; other site 338969004015 Mg2+ binding site [ion binding]; other site 338969004016 G-X-G motif; other site 338969004017 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 338969004018 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338969004019 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 338969004020 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 338969004021 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 338969004022 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 338969004023 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 338969004024 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338969004025 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338969004026 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 338969004027 motif II; other site 338969004028 phosphoglucomutase; Validated; Region: PRK07564 338969004029 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 338969004030 active site 338969004031 substrate binding site [chemical binding]; other site 338969004032 metal binding site [ion binding]; metal-binding site 338969004033 Putative glucoamylase; Region: Glycoamylase; cl19893 338969004034 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 338969004035 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 338969004036 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 338969004037 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338969004038 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338969004039 ligand binding site [chemical binding]; other site 338969004040 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969004041 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; cl17220 338969004042 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 338969004043 putative ion selectivity filter; other site 338969004044 putative pore gating glutamate residue; other site 338969004045 putative H+/Cl- coupling transport residue; other site 338969004046 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 338969004047 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 338969004048 TolQ protein; Region: tolQ; TIGR02796 338969004049 TolR protein; Region: tolR; TIGR02801 338969004050 TolA protein; Region: tolA_full; TIGR02794 338969004051 TonB C terminal; Region: TonB_2; pfam13103 338969004052 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338969004053 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 338969004054 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338969004055 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 338969004056 alpha subunit interaction interface [polypeptide binding]; other site 338969004057 Walker A motif; other site 338969004058 ATP binding site [chemical binding]; other site 338969004059 Walker B motif; other site 338969004060 inhibitor binding site; inhibition site 338969004061 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338969004062 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 338969004063 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 338969004064 gamma subunit interface [polypeptide binding]; other site 338969004065 epsilon subunit interface [polypeptide binding]; other site 338969004066 LBP interface [polypeptide binding]; other site 338969004067 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 338969004068 N-ATPase, AtpR subunit; Region: AtpR; pfam12966 338969004069 alternate F1F0 ATPase, F0 subunit A; Region: altF1_A; TIGR03306 338969004070 alternate F1F0 ATPase, F0 subunit C; Region: alt_F1F0_F0_C; TIGR03322 338969004071 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 338969004072 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 338969004073 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 338969004074 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 338969004075 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338969004076 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 338969004077 beta subunit interaction interface [polypeptide binding]; other site 338969004078 Walker A motif; other site 338969004079 ATP binding site [chemical binding]; other site 338969004080 Walker B motif; other site 338969004081 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338969004082 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 338969004083 core domain interface [polypeptide binding]; other site 338969004084 delta subunit interface [polypeptide binding]; other site 338969004085 epsilon subunit interface [polypeptide binding]; other site 338969004086 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 338969004087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 338969004088 zinc-finger binding domain of transposase IS66; Region: zf-IS66; pfam13005 338969004089 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 338969004090 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 338969004091 Transposase; Region: DEDD_Tnp_IS110; pfam01548 338969004092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 338969004093 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 338969004094 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 338969004095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 338969004096 Transposase; Region: HTH_Tnp_1; cl17663 338969004097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 338969004098 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 338969004099 AAA domain; Region: AAA_22; pfam13401 338969004100 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 338969004101 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 338969004102 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 338969004103 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 338969004104 Protein of unknown function (DUF3228); Region: DUF3228; pfam11539 338969004105 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969004106 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 338969004107 Helix-turn-helix domain; Region: HTH_38; pfam13936 338969004108 Homeodomain-like domain; Region: HTH_32; pfam13565 338969004109 Integrase core domain; Region: rve; pfam00665 338969004110 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 338969004111 active site 338969004112 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 338969004113 catalytic residues [active] 338969004114 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 338969004115 Putative transposase; Region: Y2_Tnp; pfam04986 338969004116 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 338969004117 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 338969004118 active site 338969004119 DNA binding site [nucleotide binding] 338969004120 Int/Topo IB signature motif; other site 338969004121 NifQ; Region: NifQ; pfam04891 338969004122 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 338969004123 Domain of unknown function (DUF955); Region: DUF955; cl01076 338969004124 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338969004125 Part of AAA domain; Region: AAA_19; pfam13245 338969004126 short chain dehydrogenase; Provisional; Region: PRK07041 338969004127 Pleckstrin homology-like domain; Region: PH-like; cl17171 338969004128 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 338969004129 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 338969004130 H+ Antiporter protein; Region: 2A0121; TIGR00900 338969004131 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 338969004132 putative substrate translocation pore; other site 338969004133 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 338969004134 catalytic motif [active] 338969004135 Catalytic residue [active] 338969004136 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 338969004137 active site 338969004138 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 338969004139 nucleotide binding site/active site [active] 338969004140 HIT family signature motif; other site 338969004141 catalytic residue [active] 338969004142 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 338969004143 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 338969004144 catalytic residues [active] 338969004145 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 338969004146 active site 338969004147 substrate binding site [chemical binding]; other site 338969004148 Mg2+ binding site [ion binding]; other site 338969004149 MarR family; Region: MarR_2; cl17246 338969004150 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969004151 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 338969004152 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 338969004153 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 338969004154 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 338969004155 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 338969004156 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 338969004157 Predicted integral membrane protein [Function unknown]; Region: COG5615 338969004158 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 338969004159 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 338969004160 putative substrate translocation pore; other site 338969004161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969004162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969004163 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 338969004164 putative effector binding pocket; other site 338969004165 dimerization interface [polypeptide binding]; other site 338969004166 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 338969004167 mce related protein; Region: MCE; pfam02470 338969004168 Permease; Region: Permease; cl00510 338969004169 Uncharacterized conserved protein [Function unknown]; Region: COG4544 338969004170 Y-family of DNA polymerases; Region: PolY; cl12025 338969004171 DNA binding site [nucleotide binding] 338969004172 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 338969004173 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 338969004174 putative active site [active] 338969004175 putative PHP Thumb interface [polypeptide binding]; other site 338969004176 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 338969004177 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 338969004178 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 338969004179 generic binding surface II; other site 338969004180 generic binding surface I; other site 338969004181 Caspase domain; Region: Peptidase_C14; pfam00656 338969004182 CHAT domain; Region: CHAT; pfam12770 338969004183 TIR domain; Region: TIR_2; pfam13676 338969004184 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 338969004185 TPR motif; other site 338969004186 TPR repeat; Region: TPR_11; pfam13414 338969004187 binding surface 338969004188 ribonuclease Z; Provisional; Region: PRK02126 338969004189 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 338969004190 Chain length determinant protein; Region: Wzz; pfam02706 338969004191 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 338969004192 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 338969004193 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 338969004194 NADP binding site [chemical binding]; other site 338969004195 active site 338969004196 putative substrate binding site [chemical binding]; other site 338969004197 EPS-associated transcriptional regulator, MarR family; Region: MarR_EPS; TIGR04176 338969004198 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 338969004199 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 338969004200 NADP-binding site; other site 338969004201 homotetramer interface [polypeptide binding]; other site 338969004202 substrate binding site [chemical binding]; other site 338969004203 homodimer interface [polypeptide binding]; other site 338969004204 active site 338969004205 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 338969004206 putative trimer interface [polypeptide binding]; other site 338969004207 putative active site [active] 338969004208 putative substrate binding site [chemical binding]; other site 338969004209 putative CoA binding site [chemical binding]; other site 338969004210 WxcM-like, C-terminal; Region: FdtA; pfam05523 338969004211 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 338969004212 inhibitor-cofactor binding pocket; inhibition site 338969004213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969004214 catalytic residue [active] 338969004215 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 338969004216 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 338969004217 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 338969004218 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 338969004219 Ligand binding site; other site 338969004220 oligomer interface; other site 338969004221 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 338969004222 S-adenosylmethionine binding site [chemical binding]; other site 338969004223 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 338969004224 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 338969004225 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 338969004226 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 338969004227 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 338969004228 dimer interface [polypeptide binding]; other site 338969004229 active site 338969004230 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 338969004231 classical (c) SDRs; Region: SDR_c; cd05233 338969004232 NAD(P) binding site [chemical binding]; other site 338969004233 active site 338969004234 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like1; cd08196 338969004235 putative active site [active] 338969004236 metal binding site [ion binding]; metal-binding site 338969004237 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 338969004238 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 338969004239 putative ligand binding site [chemical binding]; other site 338969004240 putative NAD binding site [chemical binding]; other site 338969004241 catalytic site [active] 338969004242 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 338969004243 putative trimer interface [polypeptide binding]; other site 338969004244 putative CoA binding site [chemical binding]; other site 338969004245 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 338969004246 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 338969004247 substrate binding site; other site 338969004248 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 338969004249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969004250 NAD(P) binding site [chemical binding]; other site 338969004251 active site 338969004252 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 338969004253 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 338969004254 inhibitor-cofactor binding pocket; inhibition site 338969004255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969004256 catalytic residue [active] 338969004257 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338969004258 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 338969004259 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 338969004260 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 338969004261 active site 338969004262 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 338969004263 trimer interface [polypeptide binding]; other site 338969004264 active site 338969004265 substrate binding site [chemical binding]; other site 338969004266 CoA binding site [chemical binding]; other site 338969004267 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338969004268 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 338969004269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969004270 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338969004271 NAD(P) binding site [chemical binding]; other site 338969004272 active site 338969004273 serine O-acetyltransferase; Region: cysE; TIGR01172 338969004274 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 338969004275 trimer interface [polypeptide binding]; other site 338969004276 active site 338969004277 substrate binding site [chemical binding]; other site 338969004278 CoA binding site [chemical binding]; other site 338969004279 Bacterial sugar transferase; Region: Bac_transf; pfam02397 338969004280 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 338969004281 O-Antigen ligase; Region: Wzy_C; pfam04932 338969004282 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 338969004283 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338969004284 Pilin (bacterial filament); Region: Pilin; pfam00114 338969004285 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 338969004286 Sel1-like repeats; Region: SEL1; smart00671 338969004287 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 338969004288 substrate binding pocket [chemical binding]; other site 338969004289 chain length determination region; other site 338969004290 substrate-Mg2+ binding site; other site 338969004291 catalytic residues [active] 338969004292 aspartate-rich region 1; other site 338969004293 active site lid residues [active] 338969004294 aspartate-rich region 2; other site 338969004295 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 338969004296 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 338969004297 GTPase CgtA; Reviewed; Region: obgE; PRK12299 338969004298 GTP1/OBG; Region: GTP1_OBG; pfam01018 338969004299 Obg GTPase; Region: Obg; cd01898 338969004300 G1 box; other site 338969004301 GTP/Mg2+ binding site [chemical binding]; other site 338969004302 Switch I region; other site 338969004303 G2 box; other site 338969004304 G3 box; other site 338969004305 Switch II region; other site 338969004306 G4 box; other site 338969004307 G5 box; other site 338969004308 gamma-glutamyl kinase; Provisional; Region: PRK05429 338969004309 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 338969004310 nucleotide binding site [chemical binding]; other site 338969004311 homotetrameric interface [polypeptide binding]; other site 338969004312 putative phosphate binding site [ion binding]; other site 338969004313 putative allosteric binding site; other site 338969004314 PUA domain; Region: PUA; pfam01472 338969004315 CNP1-like family; Region: CNP1; pfam08750 338969004316 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 338969004317 putative active site [active] 338969004318 Ap4A binding site [chemical binding]; other site 338969004319 nudix motif; other site 338969004320 putative metal binding site [ion binding]; other site 338969004321 prolyl-tRNA synthetase; Provisional; Region: PRK09194 338969004322 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 338969004323 dimer interface [polypeptide binding]; other site 338969004324 motif 1; other site 338969004325 active site 338969004326 motif 2; other site 338969004327 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 338969004328 putative deacylase active site [active] 338969004329 motif 3; other site 338969004330 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 338969004331 anticodon binding site; other site 338969004332 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338969004333 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 338969004334 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969004335 catalytic residue [active] 338969004336 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 338969004337 putative GSH binding site [chemical binding]; other site 338969004338 catalytic residues [active] 338969004339 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 338969004340 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 338969004341 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 338969004342 Chain length determinant protein; Region: Wzz; pfam02706 338969004343 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 338969004344 active site 338969004345 DNA binding site [nucleotide binding] 338969004346 Int/Topo IB signature motif; other site 338969004347 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 338969004348 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 338969004349 S-adenosylmethionine binding site [chemical binding]; other site 338969004350 peptide chain release factor 1; Validated; Region: prfA; PRK00591 338969004351 This domain is found in peptide chain release factors; Region: PCRF; smart00937 338969004352 RF-1 domain; Region: RF-1; pfam00472 338969004353 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 338969004354 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 338969004355 tRNA; other site 338969004356 putative tRNA binding site [nucleotide binding]; other site 338969004357 putative NADP binding site [chemical binding]; other site 338969004358 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 338969004359 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 338969004360 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 338969004361 active site 338969004362 catalytic site [active] 338969004363 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 338969004364 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 338969004365 Walker A/P-loop; other site 338969004366 ATP binding site [chemical binding]; other site 338969004367 Q-loop/lid; other site 338969004368 ABC transporter signature motif; other site 338969004369 Walker B; other site 338969004370 D-loop; other site 338969004371 H-loop/switch region; other site 338969004372 TOBE domain; Region: TOBE_2; pfam08402 338969004373 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 338969004374 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 338969004375 dimer interface [polypeptide binding]; other site 338969004376 conserved gate region; other site 338969004377 putative PBP binding loops; other site 338969004378 ABC-ATPase subunit interface; other site 338969004379 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 338969004380 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 338969004381 dimer interface [polypeptide binding]; other site 338969004382 conserved gate region; other site 338969004383 putative PBP binding loops; other site 338969004384 ABC-ATPase subunit interface; other site 338969004385 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 338969004386 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 338969004387 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 338969004388 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 338969004389 FAD binding domain; Region: FAD_binding_4; pfam01565 338969004390 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 338969004391 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 338969004392 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338969004393 Cysteine-rich domain; Region: CCG; pfam02754 338969004394 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 338969004395 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 338969004396 HIT family signature motif; other site 338969004397 catalytic residue [active] 338969004398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 338969004399 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 338969004400 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 338969004401 S-adenosylmethionine binding site [chemical binding]; other site 338969004402 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 338969004403 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 338969004404 SCP-2 sterol transfer family; Region: SCP2; cl01225 338969004405 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 338969004406 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 338969004407 Zinc ribbon domain; Region: Zn-ribbon_8; cl00993 338969004408 Uncharacterized conserved protein [Function unknown]; Region: COG2928 338969004409 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 338969004410 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 338969004411 dimer interface [polypeptide binding]; other site 338969004412 anticodon binding site; other site 338969004413 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 338969004414 homodimer interface [polypeptide binding]; other site 338969004415 motif 1; other site 338969004416 active site 338969004417 motif 2; other site 338969004418 GAD domain; Region: GAD; pfam02938 338969004419 motif 3; other site 338969004420 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 338969004421 nudix motif; other site 338969004422 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 338969004423 putative catalytic site [active] 338969004424 putative metal binding site [ion binding]; other site 338969004425 putative phosphate binding site [ion binding]; other site 338969004426 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 338969004427 PLD-like domain; Region: PLDc_2; pfam13091 338969004428 putative active site [active] 338969004429 catalytic site [active] 338969004430 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 338969004431 PLD-like domain; Region: PLDc_2; pfam13091 338969004432 putative active site [active] 338969004433 catalytic site [active] 338969004434 GTP cyclohydrolase I; Region: GTP_cyclohydroI; pfam01227 338969004435 active site 338969004436 Sensors of blue-light using FAD; Region: BLUF; smart01034 338969004437 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 338969004438 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 338969004439 P-loop; other site 338969004440 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969004441 metal binding site [ion binding]; metal-binding site 338969004442 active site 338969004443 I-site; other site 338969004444 Staphylococcal nuclease homologues; Region: SNc; smart00318 338969004445 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 338969004446 Catalytic site; other site 338969004447 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 338969004448 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 338969004449 ATP binding site [chemical binding]; other site 338969004450 substrate interface [chemical binding]; other site 338969004451 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 338969004452 C-terminal peptidase (prc); Region: prc; TIGR00225 338969004453 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 338969004454 protein binding site [polypeptide binding]; other site 338969004455 Catalytic dyad [active] 338969004456 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 338969004457 catalytic core [active] 338969004458 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 338969004459 active site residue [active] 338969004460 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 338969004461 GSH binding site [chemical binding]; other site 338969004462 catalytic residues [active] 338969004463 preprotein translocase subunit SecB; Validated; Region: PRK05751 338969004464 SecA binding site; other site 338969004465 Preprotein binding site; other site 338969004466 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 338969004467 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 338969004468 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 338969004469 cyanophycin synthetase; Provisional; Region: PRK14016 338969004470 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969004471 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338969004472 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338969004473 cyanophycin synthetase; Provisional; Region: PRK14016 338969004474 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969004475 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338969004476 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338969004477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969004478 Walker A/P-loop; other site 338969004479 ATP binding site [chemical binding]; other site 338969004480 Q-loop/lid; other site 338969004481 ABC transporter signature motif; other site 338969004482 Walker B; other site 338969004483 D-loop; other site 338969004484 H-loop/switch region; other site 338969004485 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 338969004486 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 338969004487 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 338969004488 dimerization interface [polypeptide binding]; other site 338969004489 active site 338969004490 quinolinate synthetase; Provisional; Region: PRK09375 338969004491 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 338969004492 Phosphotransferase enzyme family; Region: APH; pfam01636 338969004493 putative active site [active] 338969004494 putative substrate binding site [chemical binding]; other site 338969004495 ATP binding site [chemical binding]; other site 338969004496 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 338969004497 DNA polymerase I; Provisional; Region: PRK05755 338969004498 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 338969004499 active site 338969004500 metal binding site 1 [ion binding]; metal-binding site 338969004501 putative 5' ssDNA interaction site; other site 338969004502 metal binding site 3; metal-binding site 338969004503 metal binding site 2 [ion binding]; metal-binding site 338969004504 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 338969004505 putative DNA binding site [nucleotide binding]; other site 338969004506 putative metal binding site [ion binding]; other site 338969004507 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 338969004508 active site 338969004509 catalytic site [active] 338969004510 substrate binding site [chemical binding]; other site 338969004511 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 338969004512 active site 338969004513 DNA binding site [nucleotide binding] 338969004514 catalytic site [active] 338969004515 PhoD-like phosphatase; Region: PhoD; pfam09423 338969004516 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 338969004517 putative active site [active] 338969004518 putative metal binding site [ion binding]; other site 338969004519 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 338969004520 homodimer interface [polypeptide binding]; other site 338969004521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969004522 substrate-cofactor binding pocket; other site 338969004523 catalytic residue [active] 338969004524 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 338969004525 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969004526 catalytic residue [active] 338969004527 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 338969004528 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 338969004529 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 338969004530 motif II; other site 338969004531 NRDE protein; Region: NRDE; cl01315 338969004532 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 338969004533 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 338969004534 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 338969004535 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 338969004536 ATP binding site [chemical binding]; other site 338969004537 putative Mg++ binding site [ion binding]; other site 338969004538 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 338969004539 nucleotide binding region [chemical binding]; other site 338969004540 ATP-binding site [chemical binding]; other site 338969004541 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 338969004542 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 338969004543 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 338969004544 substrate binding site; other site 338969004545 dimer interface; other site 338969004546 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 338969004547 homotrimer interaction site [polypeptide binding]; other site 338969004548 zinc binding site [ion binding]; other site 338969004549 CDP-binding sites; other site 338969004550 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969004551 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 338969004552 FMN binding site [chemical binding]; other site 338969004553 substrate binding site [chemical binding]; other site 338969004554 putative catalytic residue [active] 338969004555 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 338969004556 tetramer interface [polypeptide binding]; other site 338969004557 active site 338969004558 Mg2+/Mn2+ binding site [ion binding]; other site 338969004559 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 338969004560 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 338969004561 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 338969004562 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 338969004563 active site 338969004564 dimer interface [polypeptide binding]; other site 338969004565 motif 1; other site 338969004566 motif 2; other site 338969004567 motif 3; other site 338969004568 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 338969004569 anticodon binding site; other site 338969004570 translation initiation factor IF-3; Region: infC; TIGR00168 338969004571 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 338969004572 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 338969004573 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 338969004574 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 338969004575 23S rRNA binding site [nucleotide binding]; other site 338969004576 L21 binding site [polypeptide binding]; other site 338969004577 L13 binding site [polypeptide binding]; other site 338969004578 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 338969004579 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 338969004580 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 338969004581 dimer interface [polypeptide binding]; other site 338969004582 motif 1; other site 338969004583 active site 338969004584 motif 2; other site 338969004585 motif 3; other site 338969004586 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 338969004587 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 338969004588 putative tRNA-binding site [nucleotide binding]; other site 338969004589 B3/4 domain; Region: B3_4; pfam03483 338969004590 tRNA synthetase B5 domain; Region: B5; smart00874 338969004591 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 338969004592 dimer interface [polypeptide binding]; other site 338969004593 motif 1; other site 338969004594 motif 3; other site 338969004595 motif 2; other site 338969004596 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 338969004597 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 338969004598 DNA binding site [nucleotide binding] 338969004599 dimer interface [polypeptide binding]; other site 338969004600 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 338969004601 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 338969004602 DNA binding residues [nucleotide binding] 338969004603 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 338969004604 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 338969004605 putative active site [active] 338969004606 putative metal binding site [ion binding]; other site 338969004607 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 338969004608 substrate binding site [chemical binding]; other site 338969004609 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 338969004610 active site 338969004611 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 338969004612 Domain of unknown function (DUF4440); Region: DUF4440; pfam14534 338969004613 TPR repeat; Region: TPR_11; pfam13414 338969004614 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 338969004615 binding surface 338969004616 TPR motif; other site 338969004617 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 338969004618 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 338969004619 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 338969004620 active site 338969004621 HIGH motif; other site 338969004622 KMSKS motif; other site 338969004623 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 338969004624 tRNA binding surface [nucleotide binding]; other site 338969004625 anticodon binding site; other site 338969004626 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 338969004627 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 338969004628 minor groove reading motif; other site 338969004629 helix-hairpin-helix signature motif; other site 338969004630 substrate binding pocket [chemical binding]; other site 338969004631 active site 338969004632 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 338969004633 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 338969004634 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 338969004635 Ligand Binding Site [chemical binding]; other site 338969004636 TilS substrate binding domain; Region: TilS; pfam09179 338969004637 aspartate kinase; Reviewed; Region: PRK06635 338969004638 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 338969004639 putative nucleotide binding site [chemical binding]; other site 338969004640 putative catalytic residues [active] 338969004641 putative Mg ion binding site [ion binding]; other site 338969004642 putative aspartate binding site [chemical binding]; other site 338969004643 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 338969004644 putative allosteric regulatory site; other site 338969004645 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 338969004646 integrase; Provisional; Region: PRK09692 338969004647 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 338969004648 active site 338969004649 Int/Topo IB signature motif; other site 338969004650 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 338969004651 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 338969004652 P-loop; other site 338969004653 Magnesium ion binding site [ion binding]; other site 338969004654 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 338969004655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 338969004656 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 338969004657 active site 338969004658 metal binding site [ion binding]; metal-binding site 338969004659 interdomain interaction site; other site 338969004660 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 338969004661 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 338969004662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 338969004663 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 338969004664 HsdM N-terminal domain; Region: HsdM_N; pfam12161 338969004665 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338969004666 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 338969004667 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338969004668 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338969004669 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 338969004670 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 338969004671 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 338969004672 ATP binding site [chemical binding]; other site 338969004673 putative Mg++ binding site [ion binding]; other site 338969004674 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 338969004675 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 338969004676 inhibitor-cofactor binding pocket; inhibition site 338969004677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969004678 catalytic residue [active] 338969004679 Rubredoxin [Energy production and conversion]; Region: COG1773 338969004680 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 338969004681 iron binding site [ion binding]; other site 338969004682 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 338969004683 active site 338969004684 phosphorylation site [posttranslational modification] 338969004685 intermolecular recognition site; other site 338969004686 dimerization interface [polypeptide binding]; other site 338969004687 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 338969004688 active site 338969004689 phosphorylation site [posttranslational modification] 338969004690 intermolecular recognition site; other site 338969004691 dimerization interface [polypeptide binding]; other site 338969004692 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338969004693 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 338969004694 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969004695 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969004696 dimer interface [polypeptide binding]; other site 338969004697 putative CheW interface [polypeptide binding]; other site 338969004698 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338969004699 putative binding surface; other site 338969004700 active site 338969004701 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 338969004702 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338969004703 putative binding surface; other site 338969004704 active site 338969004705 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338969004706 putative binding surface; other site 338969004707 active site 338969004708 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338969004709 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 338969004710 ATP binding site [chemical binding]; other site 338969004711 Mg2+ binding site [ion binding]; other site 338969004712 G-X-G motif; other site 338969004713 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338969004714 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969004715 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 338969004716 active site 338969004717 phosphorylation site [posttranslational modification] 338969004718 intermolecular recognition site; other site 338969004719 dimerization interface [polypeptide binding]; other site 338969004720 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 338969004721 DNA photolyase; Region: DNA_photolyase; pfam00875 338969004722 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 338969004723 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 338969004724 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 338969004725 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969004726 active site 338969004727 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 338969004728 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 338969004729 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 338969004730 dihydroorotase; Provisional; Region: PRK07627 338969004731 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 338969004732 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 338969004733 active site 338969004734 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 338969004735 elongation factor G; Reviewed; Region: PRK12740 338969004736 G1 box; other site 338969004737 putative GEF interaction site [polypeptide binding]; other site 338969004738 GTP/Mg2+ binding site [chemical binding]; other site 338969004739 Switch I region; other site 338969004740 G2 box; other site 338969004741 G3 box; other site 338969004742 Switch II region; other site 338969004743 G4 box; other site 338969004744 G5 box; other site 338969004745 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 338969004746 Elongation Factor G, domain II; Region: EFG_II; pfam14492 338969004747 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 338969004748 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 338969004749 Beta/Gamma crystallin; Region: Crystall; pfam00030 338969004750 Beta/Gamma crystallin; Region: Crystall; pfam00030 338969004751 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 338969004752 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 338969004753 putative protease; Provisional; Region: PRK15452 338969004754 hypothetical protein; Provisional; Region: PRK09256 338969004755 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 338969004756 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338969004757 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 338969004758 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 338969004759 GTP/Mg2+ binding site [chemical binding]; other site 338969004760 G4 box; other site 338969004761 G5 box; other site 338969004762 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 338969004763 G1 box; other site 338969004764 G1 box; other site 338969004765 GTP/Mg2+ binding site [chemical binding]; other site 338969004766 Switch I region; other site 338969004767 G2 box; other site 338969004768 G2 box; other site 338969004769 Switch I region; other site 338969004770 G3 box; other site 338969004771 G3 box; other site 338969004772 Switch II region; other site 338969004773 Switch II region; other site 338969004774 G4 box; other site 338969004775 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 338969004776 catalytic loop [active] 338969004777 iron binding site [ion binding]; other site 338969004778 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 338969004779 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 338969004780 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 338969004781 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 338969004782 dimer interface [polypeptide binding]; other site 338969004783 active site 338969004784 catalytic residue [active] 338969004785 metal binding site [ion binding]; metal-binding site 338969004786 phosphoribulokinase; Provisional; Region: PRK15453 338969004787 active site 338969004788 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 338969004789 AMP binding site [chemical binding]; other site 338969004790 metal binding site [ion binding]; metal-binding site 338969004791 active site 338969004792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969004793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969004794 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 338969004795 putative dimerization interface [polypeptide binding]; other site 338969004796 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; cl00250 338969004797 30S subunit binding site; other site 338969004798 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 338969004799 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 338969004800 TIGR00153 family protein; Region: TIGR00153 338969004801 Phosphate transporter family; Region: PHO4; pfam01384 338969004802 TM2 domain; Region: TM2; pfam05154 338969004803 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 338969004804 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969004805 Coenzyme A binding pocket [chemical binding]; other site 338969004806 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 338969004807 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 338969004808 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 338969004809 RimM N-terminal domain; Region: RimM; pfam01782 338969004810 PRC-barrel domain; Region: PRC; pfam05239 338969004811 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 338969004812 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 338969004813 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 338969004814 putative active site [active] 338969004815 putative CoA binding site [chemical binding]; other site 338969004816 nudix motif; other site 338969004817 metal binding site [ion binding]; metal-binding site 338969004818 CobD/Cbib protein; Region: CobD_Cbib; cl00561 338969004819 histidinol-phosphate aminotransferase; Provisional; Region: PRK05387 338969004820 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 338969004821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969004822 homodimer interface [polypeptide binding]; other site 338969004823 catalytic residue [active] 338969004824 GTPase RsgA; Reviewed; Region: PRK00098 338969004825 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 338969004826 RNA binding site [nucleotide binding]; other site 338969004827 homodimer interface [polypeptide binding]; other site 338969004828 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 338969004829 GTPase/Zn-binding domain interface [polypeptide binding]; other site 338969004830 GTP/Mg2+ binding site [chemical binding]; other site 338969004831 G4 box; other site 338969004832 G5 box; other site 338969004833 G1 box; other site 338969004834 Switch I region; other site 338969004835 G2 box; other site 338969004836 G3 box; other site 338969004837 Switch II region; other site 338969004838 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 338969004839 aromatic arch; other site 338969004840 DCoH dimer interaction site [polypeptide binding]; other site 338969004841 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 338969004842 DCoH tetramer interaction site [polypeptide binding]; other site 338969004843 substrate binding site [chemical binding]; other site 338969004844 Peptidase family M48; Region: Peptidase_M48; pfam01435 338969004845 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 338969004846 putative active site [active] 338969004847 putative substrate binding site [chemical binding]; other site 338969004848 dimer interface [polypeptide binding]; other site 338969004849 catalytic site [active] 338969004850 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 338969004851 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 338969004852 ATP binding site [chemical binding]; other site 338969004853 Mg++ binding site [ion binding]; other site 338969004854 motif III; other site 338969004855 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 338969004856 nucleotide binding region [chemical binding]; other site 338969004857 ATP-binding site [chemical binding]; other site 338969004858 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 338969004859 PilZ domain; Region: PilZ; pfam07238 338969004860 SlyX; Region: SlyX; pfam04102 338969004861 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 338969004862 active site 338969004863 phosphorylation site [posttranslational modification] 338969004864 intermolecular recognition site; other site 338969004865 dimerization interface [polypeptide binding]; other site 338969004866 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338969004867 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 338969004868 binding surface 338969004869 TPR motif; other site 338969004870 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338969004871 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 338969004872 S-adenosylmethionine binding site [chemical binding]; other site 338969004873 RNB domain; Region: RNB; pfam00773 338969004874 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 338969004875 RNA binding site [nucleotide binding]; other site 338969004876 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 338969004877 Malic enzyme, N-terminal domain; Region: malic; pfam00390 338969004878 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 338969004879 putative NAD(P) binding site [chemical binding]; other site 338969004880 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 338969004881 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 338969004882 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969004883 EamA-like transporter family; Region: EamA; pfam00892 338969004884 EamA-like transporter family; Region: EamA; pfam00892 338969004885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969004886 metal binding site [ion binding]; metal-binding site 338969004887 active site 338969004888 I-site; other site 338969004889 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969004890 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 338969004891 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 338969004892 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 338969004893 NADP binding site [chemical binding]; other site 338969004894 dimer interface [polypeptide binding]; other site 338969004895 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 338969004896 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 338969004897 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 338969004898 PhoU domain; Region: PhoU; pfam01895 338969004899 PhoU domain; Region: PhoU; pfam01895 338969004900 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 338969004901 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 338969004902 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338969004903 active site 338969004904 HIGH motif; other site 338969004905 nucleotide binding site [chemical binding]; other site 338969004906 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338969004907 active site 338969004908 KMSKS motif; other site 338969004909 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 338969004910 tRNA binding surface [nucleotide binding]; other site 338969004911 anticodon binding site; other site 338969004912 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 338969004913 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 338969004914 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 338969004915 active site 338969004916 Riboflavin kinase; Region: Flavokinase; smart00904 338969004917 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 338969004918 active site 338969004919 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 338969004920 DNA ligase; Provisional; Region: PRK09125 338969004921 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 338969004922 DNA binding site [nucleotide binding] 338969004923 active site 338969004924 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 338969004925 DNA binding site [nucleotide binding] 338969004926 Dodecin; Region: Dodecin; pfam07311 338969004927 Cytochrome c; Region: Cytochrom_C; cl11414 338969004928 Protein of unknown function (DUF3096); Region: DUF3096; pfam11295 338969004929 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 338969004930 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 338969004931 Pathogenicity locus; Region: Cdd1; pfam11731 338969004932 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 338969004933 dinuclear metal binding motif [ion binding]; other site 338969004934 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 338969004935 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969004936 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 338969004937 BON domain; Region: BON; pfam04972 338969004938 SnoaL-like domain; Region: SnoaL_2; pfam12680 338969004939 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338969004940 Hemerythrin; Region: Hemerythrin; cd12107 338969004941 Fe binding site [ion binding]; other site 338969004942 Acylphosphatase; Region: Acylphosphatase; cl00551 338969004943 Cytochrome C' Region: Cytochrom_C_2; pfam01322 338969004944 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 338969004945 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 338969004946 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969004947 metal binding site [ion binding]; metal-binding site 338969004948 active site 338969004949 I-site; other site 338969004950 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 338969004951 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 338969004952 Walker A motif; other site 338969004953 ATP binding site [chemical binding]; other site 338969004954 Walker B motif; other site 338969004955 arginine finger; other site 338969004956 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 338969004957 hypothetical protein; Validated; Region: PRK00153 338969004958 recombination protein RecR; Reviewed; Region: recR; PRK00076 338969004959 RecR protein; Region: RecR; pfam02132 338969004960 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 338969004961 putative active site [active] 338969004962 putative metal-binding site [ion binding]; other site 338969004963 tetramer interface [polypeptide binding]; other site 338969004964 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 338969004965 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 338969004966 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 338969004967 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 338969004968 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969004969 catalytic residue [active] 338969004970 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338969004971 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 338969004972 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 338969004973 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 338969004974 RNA/DNA hybrid binding site [nucleotide binding]; other site 338969004975 active site 338969004976 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 338969004977 anion transporter; Region: dass; TIGR00785 338969004978 transmembrane helices; other site 338969004979 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 338969004980 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 338969004981 dimer interface [polypeptide binding]; other site 338969004982 putative functional site; other site 338969004983 putative MPT binding site; other site 338969004984 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 338969004985 GTP binding site; other site 338969004986 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 338969004987 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 338969004988 FeS/SAM binding site; other site 338969004989 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 338969004990 HDOD domain; Region: HDOD; pfam08668 338969004991 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 338969004992 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 338969004993 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 338969004994 dimer interface [polypeptide binding]; other site 338969004995 substrate binding site [chemical binding]; other site 338969004996 metal binding sites [ion binding]; metal-binding site 338969004997 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969004998 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969004999 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 338969005000 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 338969005001 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 338969005002 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338969005003 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 338969005004 FAD binding domain; Region: FAD_binding_4; pfam01565 338969005005 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 338969005006 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 338969005007 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 338969005008 active site 338969005009 ADP/pyrophosphate binding site [chemical binding]; other site 338969005010 dimerization interface [polypeptide binding]; other site 338969005011 allosteric effector site; other site 338969005012 fructose-1,6-bisphosphate binding site; other site 338969005013 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969005014 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338969005015 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 338969005016 dimerization interface [polypeptide binding]; other site 338969005017 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969005018 dimer interface [polypeptide binding]; other site 338969005019 putative CheW interface [polypeptide binding]; other site 338969005020 DctM-like transporters; Region: DctM; pfam06808 338969005021 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 338969005022 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 338969005023 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 338969005024 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 338969005025 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969005026 putative active site [active] 338969005027 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969005028 heme pocket [chemical binding]; other site 338969005029 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 338969005030 dimer interface [polypeptide binding]; other site 338969005031 phosphorylation site [posttranslational modification] 338969005032 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 338969005033 ATP binding site [chemical binding]; other site 338969005034 Mg2+ binding site [ion binding]; other site 338969005035 G-X-G motif; other site 338969005036 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 338969005037 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 338969005038 active site 338969005039 phosphorylation site [posttranslational modification] 338969005040 intermolecular recognition site; other site 338969005041 dimerization interface [polypeptide binding]; other site 338969005042 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 338969005043 DNA binding residues [nucleotide binding] 338969005044 dimerization interface [polypeptide binding]; other site 338969005045 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 338969005046 putative ligand binding site [chemical binding]; other site 338969005047 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 338969005048 16S/18S rRNA binding site [nucleotide binding]; other site 338969005049 S13e-L30e interaction site [polypeptide binding]; other site 338969005050 25S rRNA binding site [nucleotide binding]; other site 338969005051 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 338969005052 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 338969005053 RNase E interface [polypeptide binding]; other site 338969005054 trimer interface [polypeptide binding]; other site 338969005055 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 338969005056 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 338969005057 RNase E interface [polypeptide binding]; other site 338969005058 trimer interface [polypeptide binding]; other site 338969005059 active site 338969005060 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 338969005061 putative nucleic acid binding region [nucleotide binding]; other site 338969005062 G-X-X-G motif; other site 338969005063 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 338969005064 RNA binding site [nucleotide binding]; other site 338969005065 domain interface; other site 338969005066 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 338969005067 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 338969005068 NAD(P) binding site [chemical binding]; other site 338969005069 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 338969005070 substrate binding site [chemical binding]; other site 338969005071 dimer interface [polypeptide binding]; other site 338969005072 catalytic triad [active] 338969005073 Preprotein translocase SecG subunit; Region: SecG; pfam03840 338969005074 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 338969005075 NADH dehydrogenase subunit B; Validated; Region: PRK06411 338969005076 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 338969005077 NADH dehydrogenase subunit D; Validated; Region: PRK06075 338969005078 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 338969005079 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 338969005080 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 338969005081 putative dimer interface [polypeptide binding]; other site 338969005082 [2Fe-2S] cluster binding site [ion binding]; other site 338969005083 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338969005084 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 338969005085 SLBB domain; Region: SLBB; pfam10531 338969005086 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 338969005087 NADH dehydrogenase subunit G; Validated; Region: PRK09129 338969005088 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 338969005089 catalytic loop [active] 338969005090 iron binding site [ion binding]; other site 338969005091 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 338969005092 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 338969005093 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 338969005094 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 338969005095 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 338969005096 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 338969005097 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 338969005098 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 338969005099 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338969005100 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338969005101 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 338969005102 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338969005103 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 338969005104 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338969005105 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 338969005106 dimer interface [polypeptide binding]; other site 338969005107 ADP-ribose binding site [chemical binding]; other site 338969005108 active site 338969005109 nudix motif; other site 338969005110 metal binding site [ion binding]; metal-binding site 338969005111 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 338969005112 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 338969005113 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 338969005114 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 338969005115 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338969005116 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 338969005117 Walker A/P-loop; other site 338969005118 ATP binding site [chemical binding]; other site 338969005119 Q-loop/lid; other site 338969005120 ABC transporter signature motif; other site 338969005121 Walker B; other site 338969005122 D-loop; other site 338969005123 H-loop/switch region; other site 338969005124 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969005125 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338969005126 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338969005127 Outer membrane efflux protein; Region: OEP; pfam02321 338969005128 Outer membrane efflux protein; Region: OEP; pfam02321 338969005129 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 338969005130 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338969005131 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969005132 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 338969005133 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 338969005134 putative substrate translocation pore; other site 338969005135 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 338969005136 CoA binding domain; Region: CoA_binding; smart00881 338969005137 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 338969005138 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 338969005139 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969005140 catalytic residue [active] 338969005141 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 338969005142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969005143 Walker A/P-loop; other site 338969005144 ATP binding site [chemical binding]; other site 338969005145 Q-loop/lid; other site 338969005146 ABC transporter signature motif; other site 338969005147 Walker B; other site 338969005148 D-loop; other site 338969005149 H-loop/switch region; other site 338969005150 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 338969005151 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 338969005152 active site 338969005153 Zn binding site [ion binding]; other site 338969005154 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 338969005155 dimer interface [polypeptide binding]; other site 338969005156 conserved gate region; other site 338969005157 putative PBP binding loops; other site 338969005158 ABC-ATPase subunit interface; other site 338969005159 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 338969005160 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 338969005161 dimer interface [polypeptide binding]; other site 338969005162 conserved gate region; other site 338969005163 putative PBP binding loops; other site 338969005164 ABC-ATPase subunit interface; other site 338969005165 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 338969005166 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 338969005167 substrate binding pocket [chemical binding]; other site 338969005168 membrane-bound complex binding site; other site 338969005169 hinge residues; other site 338969005170 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969005171 PAS fold; Region: PAS_3; pfam08447 338969005172 putative active site [active] 338969005173 heme pocket [chemical binding]; other site 338969005174 PAS domain; Region: PAS_9; pfam13426 338969005175 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969005176 putative active site [active] 338969005177 heme pocket [chemical binding]; other site 338969005178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969005179 metal binding site [ion binding]; metal-binding site 338969005180 active site 338969005181 I-site; other site 338969005182 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338969005183 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 338969005184 FtsX-like permease family; Region: FtsX; pfam02687 338969005185 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338969005186 FtsX-like permease family; Region: FtsX; pfam02687 338969005187 FOG: CBS domain [General function prediction only]; Region: COG0517 338969005188 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 338969005189 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 338969005190 active site 338969005191 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 338969005192 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 338969005193 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 338969005194 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338969005195 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338969005196 Walker A/P-loop; other site 338969005197 ATP binding site [chemical binding]; other site 338969005198 Q-loop/lid; other site 338969005199 ABC transporter signature motif; other site 338969005200 Walker B; other site 338969005201 D-loop; other site 338969005202 H-loop/switch region; other site 338969005203 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 338969005204 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 338969005205 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 338969005206 putative substrate translocation pore; other site 338969005207 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338969005208 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 338969005209 putative dimer interface [polypeptide binding]; other site 338969005210 PAS domain S-box; Region: sensory_box; TIGR00229 338969005211 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969005212 putative active site [active] 338969005213 heme pocket [chemical binding]; other site 338969005214 PAS domain S-box; Region: sensory_box; TIGR00229 338969005215 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969005216 putative active site [active] 338969005217 heme pocket [chemical binding]; other site 338969005218 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 338969005219 Histidine kinase; Region: HisKA_3; pfam07730 338969005220 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 338969005221 ATP binding site [chemical binding]; other site 338969005222 Mg2+ binding site [ion binding]; other site 338969005223 G-X-G motif; other site 338969005224 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969005225 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 338969005226 active site 338969005227 phosphorylation site [posttranslational modification] 338969005228 intermolecular recognition site; other site 338969005229 dimerization interface [polypeptide binding]; other site 338969005230 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 338969005231 DNA binding residues [nucleotide binding] 338969005232 dimerization interface [polypeptide binding]; other site 338969005233 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 338969005234 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 338969005235 ligand binding site [chemical binding]; other site 338969005236 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 338969005237 putative switch regulator; other site 338969005238 non-specific DNA interactions [nucleotide binding]; other site 338969005239 DNA binding site [nucleotide binding] 338969005240 sequence specific DNA binding site [nucleotide binding]; other site 338969005241 putative cAMP binding site [chemical binding]; other site 338969005242 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 338969005243 Ligand Binding Site [chemical binding]; other site 338969005244 LabA_like proteins; Region: LabA_like; cd06167 338969005245 putative metal binding site [ion binding]; other site 338969005246 Uncharacterized conserved protein [Function unknown]; Region: COG1432 338969005247 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 338969005248 Restriction endonuclease; Region: Mrr_cat; pfam04471 338969005249 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 338969005250 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 338969005251 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 338969005252 ferrochelatase; Reviewed; Region: hemH; PRK00035 338969005253 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 338969005254 C-terminal domain interface [polypeptide binding]; other site 338969005255 active site 338969005256 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 338969005257 active site 338969005258 N-terminal domain interface [polypeptide binding]; other site 338969005259 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 338969005260 homodimer interface [polypeptide binding]; other site 338969005261 substrate-cofactor binding pocket; other site 338969005262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969005263 catalytic residue [active] 338969005264 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 338969005265 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 338969005266 active site 338969005267 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 338969005268 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 338969005269 active site lid residues [active] 338969005270 substrate binding pocket [chemical binding]; other site 338969005271 catalytic residues [active] 338969005272 substrate-Mg2+ binding site; other site 338969005273 aspartate-rich region 1; other site 338969005274 aspartate-rich region 2; other site 338969005275 squalene synthase HpnC; Region: HpnC; TIGR03464 338969005276 substrate binding pocket [chemical binding]; other site 338969005277 substrate-Mg2+ binding site; other site 338969005278 aspartate-rich region 1; other site 338969005279 aspartate-rich region 2; other site 338969005280 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969005281 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 338969005282 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969005283 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 338969005284 trigger factor; Provisional; Region: tig; PRK01490 338969005285 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 338969005286 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 338969005287 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 338969005288 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 338969005289 oligomer interface [polypeptide binding]; other site 338969005290 active site residues [active] 338969005291 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 338969005292 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 338969005293 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 338969005294 Walker A motif; other site 338969005295 ATP binding site [chemical binding]; other site 338969005296 Walker B motif; other site 338969005297 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 338969005298 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 338969005299 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 338969005300 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 338969005301 Walker A motif; other site 338969005302 ATP binding site [chemical binding]; other site 338969005303 Walker B motif; other site 338969005304 arginine finger; other site 338969005305 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338969005306 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 338969005307 putative active site [active] 338969005308 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 338969005309 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 338969005310 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338969005311 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 338969005312 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969005313 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 338969005314 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 338969005315 DNA binding residues [nucleotide binding] 338969005316 chromosome condensation membrane protein; Provisional; Region: PRK14196 338969005317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969005318 metal binding site [ion binding]; metal-binding site 338969005319 active site 338969005320 I-site; other site 338969005321 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 338969005322 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 338969005323 NADP binding site [chemical binding]; other site 338969005324 homopentamer interface [polypeptide binding]; other site 338969005325 substrate binding site [chemical binding]; other site 338969005326 active site 338969005327 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 338969005328 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 338969005329 putative ribose interaction site [chemical binding]; other site 338969005330 putative ADP binding site [chemical binding]; other site 338969005331 tetratricopeptide repeat protein; Provisional; Region: PRK11788 338969005332 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 338969005333 binding surface 338969005334 TPR motif; other site 338969005335 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 338969005336 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 338969005337 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 338969005338 dimer interface [polypeptide binding]; other site 338969005339 DNA binding site [nucleotide binding] 338969005340 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 338969005341 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 338969005342 RNA binding site [nucleotide binding]; other site 338969005343 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 338969005344 RNA binding site [nucleotide binding]; other site 338969005345 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 338969005346 RNA binding site [nucleotide binding]; other site 338969005347 S1_RPS1_repeat_ec4: 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_ec4; cd05689 338969005348 RNA binding site [nucleotide binding]; other site 338969005349 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 338969005350 RNA binding site [nucleotide binding]; other site 338969005351 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 338969005352 RNA binding site [nucleotide binding]; other site 338969005353 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 338969005354 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 338969005355 hinge; other site 338969005356 active site 338969005357 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 338969005358 CMP-binding site; other site 338969005359 The sites determining sugar specificity; other site 338969005360 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 338969005361 prephenate dehydrogenase; Validated; Region: PRK08507 338969005362 Chorismate mutase type II; Region: CM_2; cl00693 338969005363 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 338969005364 Prephenate dehydratase; Region: PDT; pfam00800 338969005365 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 338969005366 putative L-Phe binding site [chemical binding]; other site 338969005367 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 338969005368 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969005369 catalytic residue [active] 338969005370 DNA gyrase subunit A; Validated; Region: PRK05560 338969005371 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 338969005372 CAP-like domain; other site 338969005373 active site 338969005374 primary dimer interface [polypeptide binding]; other site 338969005375 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338969005376 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338969005377 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338969005378 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338969005379 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338969005380 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338969005381 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338969005382 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338969005383 ligand binding site [chemical binding]; other site 338969005384 enoyl-CoA hydratase; Provisional; Region: PRK05862 338969005385 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 338969005386 substrate binding site [chemical binding]; other site 338969005387 oxyanion hole (OAH) forming residues; other site 338969005388 trimer interface [polypeptide binding]; other site 338969005389 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 338969005390 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 338969005391 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 338969005392 protein binding site [polypeptide binding]; other site 338969005393 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 338969005394 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 338969005395 dimerization domain [polypeptide binding]; other site 338969005396 dimer interface [polypeptide binding]; other site 338969005397 catalytic residues [active] 338969005398 Squalene epoxidase; Region: SE; cl17314 338969005399 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 338969005400 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 338969005401 active site 338969005402 catalytic triad [active] 338969005403 calcium binding site [ion binding]; other site 338969005404 GTP-binding protein YchF; Reviewed; Region: PRK09601 338969005405 YchF GTPase; Region: YchF; cd01900 338969005406 G1 box; other site 338969005407 GTP/Mg2+ binding site [chemical binding]; other site 338969005408 Switch I region; other site 338969005409 G2 box; other site 338969005410 Switch II region; other site 338969005411 G3 box; other site 338969005412 G4 box; other site 338969005413 G5 box; other site 338969005414 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 338969005415 Predicted membrane protein [Function unknown]; Region: COG1238 338969005416 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 338969005417 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 338969005418 FMN binding site [chemical binding]; other site 338969005419 active site 338969005420 catalytic residues [active] 338969005421 substrate binding site [chemical binding]; other site 338969005422 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 338969005423 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 338969005424 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 338969005425 purine monophosphate binding site [chemical binding]; other site 338969005426 dimer interface [polypeptide binding]; other site 338969005427 putative catalytic residues [active] 338969005428 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 338969005429 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338969005430 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 338969005431 Cytochrome c553 [Energy production and conversion]; Region: COG2863 338969005432 Cytochrome c; Region: Cytochrom_C; cl11414 338969005433 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338969005434 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 338969005435 Walker A motif; other site 338969005436 ATP binding site [chemical binding]; other site 338969005437 Walker B motif; other site 338969005438 arginine finger; other site 338969005439 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 338969005440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 338969005441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 338969005442 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 338969005443 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338969005444 Surface antigen; Region: Bac_surface_Ag; pfam01103 338969005445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 338969005446 Family of unknown function (DUF490); Region: DUF490; pfam04357 338969005447 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 338969005448 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 338969005449 dimer interface [polypeptide binding]; other site 338969005450 conserved gate region; other site 338969005451 putative PBP binding loops; other site 338969005452 ABC-ATPase subunit interface; other site 338969005453 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 338969005454 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 338969005455 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 338969005456 Walker A/P-loop; other site 338969005457 ATP binding site [chemical binding]; other site 338969005458 Q-loop/lid; other site 338969005459 ABC transporter signature motif; other site 338969005460 Walker B; other site 338969005461 D-loop; other site 338969005462 H-loop/switch region; other site 338969005463 TOBE domain; Region: TOBE_2; pfam08402 338969005464 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 338969005465 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 338969005466 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 338969005467 catalytic residues [active] 338969005468 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 338969005469 Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; Region: zf-PARP; pfam00645 338969005470 RNA polymerase sigma factor; Provisional; Region: PRK12544 338969005471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969005472 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 338969005473 DNA binding residues [nucleotide binding] 338969005474 Putative zinc-finger; Region: zf-HC2; pfam13490 338969005475 Predicted membrane protein [Function unknown]; Region: COG2259 338969005476 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 338969005477 hypothetical protein; Provisional; Region: PRK05409 338969005478 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 338969005479 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 338969005480 Methyltransferase domain; Region: Methyltransf_25; pfam13649 338969005481 Histidine-specific methyltransferase, SAM-dependent; Region: Methyltransf_33; pfam10017 338969005482 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 338969005483 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 338969005484 FeS/SAM binding site; other site 338969005485 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 338969005486 arsenite S-adenosylmethyltransferase; Reviewed; Region: arsM; PRK11873 338969005487 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 338969005488 S-adenosylmethionine binding site [chemical binding]; other site 338969005489 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 338969005490 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 338969005491 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 338969005492 dimerization interface [polypeptide binding]; other site 338969005493 putative ATP binding site [chemical binding]; other site 338969005494 putative glycosyltransferase, TIGR04348 family; Region: TIGR04348 338969005495 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 338969005496 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 338969005497 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338969005498 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 338969005499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969005500 Walker A/P-loop; other site 338969005501 ATP binding site [chemical binding]; other site 338969005502 Q-loop/lid; other site 338969005503 ABC transporter signature motif; other site 338969005504 Walker B; other site 338969005505 D-loop; other site 338969005506 H-loop/switch region; other site 338969005507 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 338969005508 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 338969005509 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 338969005510 DinB superfamily; Region: DinB_2; pfam12867 338969005511 Sulfatase-modifying factor enzyme 1; Region: FGE-sulfatase; cl19582 338969005512 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338969005513 DNA binding residues [nucleotide binding] 338969005514 Uncharacterized conserved protein [Function unknown]; Region: COG0398 338969005515 mercuric reductase; Validated; Region: PRK06370 338969005516 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969005517 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969005518 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 338969005519 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 338969005520 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 338969005521 Probable Catalytic site; other site 338969005522 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 338969005523 hypothetical protein; Provisional; Region: PRK11820 338969005524 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 338969005525 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 338969005526 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 338969005527 Catalytic domain of Protein Kinases; Region: PKc; cd00180 338969005528 active site 338969005529 ATP binding site [chemical binding]; other site 338969005530 substrate binding site [chemical binding]; other site 338969005531 activation loop (A-loop); other site 338969005532 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; cd00143 338969005533 active site 338969005534 ribonuclease PH; Reviewed; Region: rph; PRK00173 338969005535 Ribonuclease PH; Region: RNase_PH_bact; cd11362 338969005536 hexamer interface [polypeptide binding]; other site 338969005537 active site 338969005538 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 338969005539 active site 338969005540 dimerization interface [polypeptide binding]; other site 338969005541 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 338969005542 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 338969005543 FeS/SAM binding site; other site 338969005544 FOG: CBS domain [General function prediction only]; Region: COG0517 338969005545 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 338969005546 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 338969005547 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 338969005548 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 338969005549 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 338969005550 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 338969005551 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 338969005552 inhibitor site; inhibition site 338969005553 active site 338969005554 dimer interface [polypeptide binding]; other site 338969005555 catalytic residue [active] 338969005556 hypothetical protein; Validated; Region: PRK08245 338969005557 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 338969005558 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 338969005559 putative NAD(P) binding site [chemical binding]; other site 338969005560 putative active site [active] 338969005561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969005562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969005563 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 338969005564 putative dimerization interface [polypeptide binding]; other site 338969005565 FAD dependent oxidoreductase; Region: DAO; pfam01266 338969005566 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 338969005567 Transcriptional regulators [Transcription]; Region: FadR; COG2186 338969005568 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969005569 DNA-binding site [nucleotide binding]; DNA binding site 338969005570 FCD domain; Region: FCD; pfam07729 338969005571 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 338969005572 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 338969005573 NADP binding site [chemical binding]; other site 338969005574 dimer interface [polypeptide binding]; other site 338969005575 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 338969005576 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 338969005577 active site 338969005578 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 338969005579 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969005580 active site 338969005581 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969005582 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969005583 non-specific DNA interactions [nucleotide binding]; other site 338969005584 DNA binding site [nucleotide binding] 338969005585 sequence specific DNA binding site [nucleotide binding]; other site 338969005586 putative cAMP binding site [chemical binding]; other site 338969005587 Protein of unknown function, DUF480; Region: DUF480; pfam04337 338969005588 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 338969005589 active site 338969005590 substrate binding site [chemical binding]; other site 338969005591 cosubstrate binding site; other site 338969005592 catalytic site [active] 338969005593 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 338969005594 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 338969005595 HrcA protein C terminal domain; Region: HrcA; pfam01628 338969005596 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 338969005597 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 338969005598 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 338969005599 Walker A/P-loop; other site 338969005600 ATP binding site [chemical binding]; other site 338969005601 Q-loop/lid; other site 338969005602 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 338969005603 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 338969005604 ABC transporter signature motif; other site 338969005605 Walker B; other site 338969005606 D-loop; other site 338969005607 H-loop/switch region; other site 338969005608 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 338969005609 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 338969005610 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 338969005611 minor groove reading motif; other site 338969005612 helix-hairpin-helix signature motif; other site 338969005613 substrate binding pocket [chemical binding]; other site 338969005614 active site 338969005615 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 338969005616 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 338969005617 DNA binding and oxoG recognition site [nucleotide binding] 338969005618 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 338969005619 G1 box; other site 338969005620 GTP/Mg2+ binding site [chemical binding]; other site 338969005621 G2 box; other site 338969005622 Switch I region; other site 338969005623 G3 box; other site 338969005624 Switch II region; other site 338969005625 G4 box; other site 338969005626 G5 box; other site 338969005627 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 338969005628 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 338969005629 DNA binding site [nucleotide binding] 338969005630 catalytic residue [active] 338969005631 H2TH interface [polypeptide binding]; other site 338969005632 putative catalytic residues [active] 338969005633 turnover-facilitating residue; other site 338969005634 intercalation triad [nucleotide binding]; other site 338969005635 8OG recognition residue [nucleotide binding]; other site 338969005636 putative reading head residues; other site 338969005637 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 338969005638 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 338969005639 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 338969005640 TPR motif; other site 338969005641 binding surface 338969005642 Tetratricopeptide repeat; Region: TPR_19; pfam14559 338969005643 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 338969005644 binding surface 338969005645 TPR motif; other site 338969005646 Outer membrane lipoprotein LolB; Region: LolB; cl19307 338969005647 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 338969005648 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 338969005649 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 338969005650 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 338969005651 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969005652 active site 338969005653 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 338969005654 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 338969005655 5S rRNA interface [nucleotide binding]; other site 338969005656 CTC domain interface [polypeptide binding]; other site 338969005657 L16 interface [polypeptide binding]; other site 338969005658 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 338969005659 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 338969005660 putative active site [active] 338969005661 catalytic residue [active] 338969005662 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338969005663 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; cl19102 338969005664 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338969005665 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 338969005666 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 338969005667 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338969005668 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338969005669 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 338969005670 motif II; other site 338969005671 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338969005672 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 338969005673 Ligand Binding Site [chemical binding]; other site 338969005674 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 338969005675 active site 338969005676 (T/H)XGH motif; other site 338969005677 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 338969005678 S-adenosylmethionine binding site [chemical binding]; other site 338969005679 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 338969005680 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338969005681 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338969005682 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338969005683 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338969005684 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338969005685 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338969005686 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 338969005687 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 338969005688 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 338969005689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969005690 metal binding site [ion binding]; metal-binding site 338969005691 active site 338969005692 I-site; other site 338969005693 Predicted esterase [General function prediction only]; Region: COG0400 338969005694 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969005695 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338969005696 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 338969005697 P-loop; other site 338969005698 Magnesium ion binding site [ion binding]; other site 338969005699 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 338969005700 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 338969005701 putative active site [active] 338969005702 putative catalytic site [active] 338969005703 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 338969005704 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 338969005705 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969005706 active site 338969005707 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 338969005708 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 338969005709 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 338969005710 Cupredoxin superfamily; Region: Cupredoxin; cl19115 338969005711 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 338969005712 Cytochrome c; Region: Cytochrom_C; pfam00034 338969005713 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 338969005714 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 338969005715 Subunit I/III interface [polypeptide binding]; other site 338969005716 D-pathway; other site 338969005717 Subunit I/VIIc interface [polypeptide binding]; other site 338969005718 Subunit I/IV interface [polypeptide binding]; other site 338969005719 Subunit I/II interface [polypeptide binding]; other site 338969005720 Low-spin heme (heme a) binding site [chemical binding]; other site 338969005721 Subunit I/VIIa interface [polypeptide binding]; other site 338969005722 Subunit I/VIa interface [polypeptide binding]; other site 338969005723 Dimer interface; other site 338969005724 Putative water exit pathway; other site 338969005725 Binuclear center (heme a3/CuB) [ion binding]; other site 338969005726 K-pathway; other site 338969005727 Subunit I/Vb interface [polypeptide binding]; other site 338969005728 Putative proton exit pathway; other site 338969005729 Subunit I/VIb interface; other site 338969005730 Subunit I/VIc interface [polypeptide binding]; other site 338969005731 Electron transfer pathway; other site 338969005732 Subunit I/VIIIb interface [polypeptide binding]; other site 338969005733 Subunit I/VIIb interface [polypeptide binding]; other site 338969005734 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 338969005735 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 338969005736 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 338969005737 Subunit III/VIIa interface [polypeptide binding]; other site 338969005738 Phospholipid binding site [chemical binding]; other site 338969005739 Subunit I/III interface [polypeptide binding]; other site 338969005740 Subunit III/VIb interface [polypeptide binding]; other site 338969005741 Subunit III/VIa interface; other site 338969005742 Subunit III/Vb interface [polypeptide binding]; other site 338969005743 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 338969005744 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 338969005745 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338969005746 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 338969005747 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 338969005748 putative active site [active] 338969005749 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 338969005750 Cu(I) binding site [ion binding]; other site 338969005751 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 338969005752 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 338969005753 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969005754 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 338969005755 DNA binding residues [nucleotide binding] 338969005756 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 338969005757 S-adenosylmethionine binding site [chemical binding]; other site 338969005758 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; cl19102 338969005759 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 338969005760 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 338969005761 CoenzymeA binding site [chemical binding]; other site 338969005762 subunit interaction site [polypeptide binding]; other site 338969005763 PHB binding site; other site 338969005764 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969005765 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; cl17220 338969005766 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 338969005767 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969005768 putative substrate translocation pore; other site 338969005769 NAD synthetase; Provisional; Region: PRK13981 338969005770 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 338969005771 multimer interface [polypeptide binding]; other site 338969005772 active site 338969005773 catalytic triad [active] 338969005774 protein interface 1 [polypeptide binding]; other site 338969005775 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 338969005776 homodimer interface [polypeptide binding]; other site 338969005777 NAD binding pocket [chemical binding]; other site 338969005778 ATP binding pocket [chemical binding]; other site 338969005779 Mg binding site [ion binding]; other site 338969005780 active-site loop [active] 338969005781 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 338969005782 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338969005783 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338969005784 FtsX-like permease family; Region: FtsX; pfam02687 338969005785 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 338969005786 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338969005787 FtsX-like permease family; Region: FtsX; pfam02687 338969005788 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969005789 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969005790 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 338969005791 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 338969005792 ligand binding site [chemical binding]; other site 338969005793 flexible hinge region; other site 338969005794 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 338969005795 putative switch regulator; other site 338969005796 non-specific DNA interactions [nucleotide binding]; other site 338969005797 DNA binding site [nucleotide binding] 338969005798 sequence specific DNA binding site [nucleotide binding]; other site 338969005799 putative cAMP binding site [chemical binding]; other site 338969005800 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 338969005801 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 338969005802 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 338969005803 DNA binding site [nucleotide binding] 338969005804 active site 338969005805 Cupin domain; Region: Cupin_2; cl17218 338969005806 Cupin domain; Region: Cupin_2; cl17218 338969005807 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 338969005808 ThiC-associated domain; Region: ThiC-associated; pfam13667 338969005809 ThiC family; Region: ThiC; pfam01964 338969005810 Protein of unknown function (DUF342); Region: DUF342; pfam03961 338969005811 argininosuccinate lyase; Provisional; Region: PRK00855 338969005812 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 338969005813 active sites [active] 338969005814 tetramer interface [polypeptide binding]; other site 338969005815 Histidine kinase; Region: His_kinase; pfam06580 338969005816 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 338969005817 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 338969005818 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 338969005819 active site 338969005820 phosphorylation site [posttranslational modification] 338969005821 intermolecular recognition site; other site 338969005822 dimerization interface [polypeptide binding]; other site 338969005823 LytTr DNA-binding domain; Region: LytTR; smart00850 338969005824 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 338969005825 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 338969005826 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 338969005827 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 338969005828 domain interfaces; other site 338969005829 active site 338969005830 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 338969005831 active site 338969005832 HemX; Region: HemX; cl19375 338969005833 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 338969005834 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969005835 metal binding site [ion binding]; metal-binding site 338969005836 active site 338969005837 I-site; other site 338969005838 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 338969005839 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 338969005840 homodimer interface [polypeptide binding]; other site 338969005841 oligonucleotide binding site [chemical binding]; other site 338969005842 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 338969005843 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 338969005844 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 338969005845 RNA binding surface [nucleotide binding]; other site 338969005846 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338969005847 active site 338969005848 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338969005849 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 338969005850 active site 338969005851 motif I; other site 338969005852 motif II; other site 338969005853 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 338969005854 iron-sulfur cluster [ion binding]; other site 338969005855 [2Fe-2S] cluster binding site [ion binding]; other site 338969005856 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 338969005857 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 338969005858 tandem repeat interface [polypeptide binding]; other site 338969005859 oligomer interface [polypeptide binding]; other site 338969005860 active site residues [active] 338969005861 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 338969005862 putative SAM binding site [chemical binding]; other site 338969005863 homodimer interface [polypeptide binding]; other site 338969005864 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 338969005865 active site 338969005866 dimer interface [polypeptide binding]; other site 338969005867 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 338969005868 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 338969005869 putative phosphate acyltransferase; Provisional; Region: PRK05331 338969005870 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 338969005871 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 338969005872 dimer interface [polypeptide binding]; other site 338969005873 active site 338969005874 CoA binding pocket [chemical binding]; other site 338969005875 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 338969005876 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 338969005877 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 338969005878 NAD(P) binding site [chemical binding]; other site 338969005879 homotetramer interface [polypeptide binding]; other site 338969005880 homodimer interface [polypeptide binding]; other site 338969005881 active site 338969005882 acyl carrier protein; Provisional; Region: acpP; PRK00982 338969005883 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 338969005884 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 338969005885 dimer interface [polypeptide binding]; other site 338969005886 active site 338969005887 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 338969005888 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969005889 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 338969005890 DNA binding residues [nucleotide binding] 338969005891 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 338969005892 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 338969005893 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl19192 338969005894 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 338969005895 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 338969005896 PDZ domain of trypsin-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 338969005897 protein binding site [polypeptide binding]; other site 338969005898 PDZ domain of trypsin-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 338969005899 protein binding site [polypeptide binding]; other site 338969005900 GTP-binding protein LepA; Provisional; Region: PRK05433 338969005901 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 338969005902 G1 box; other site 338969005903 putative GEF interaction site [polypeptide binding]; other site 338969005904 GTP/Mg2+ binding site [chemical binding]; other site 338969005905 Switch I region; other site 338969005906 G2 box; other site 338969005907 G3 box; other site 338969005908 Switch II region; other site 338969005909 G4 box; other site 338969005910 G5 box; other site 338969005911 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 338969005912 Elongation Factor G, domain II; Region: EFG_II; pfam14492 338969005913 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 338969005914 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 338969005915 signal peptidase I; Provisional; Region: PRK10861 338969005916 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 338969005917 Catalytic site [active] 338969005918 ribonuclease III; Reviewed; Region: rnc; PRK00102 338969005919 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 338969005920 dimerization interface [polypeptide binding]; other site 338969005921 active site 338969005922 metal binding site [ion binding]; metal-binding site 338969005923 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 338969005924 dsRNA binding site [nucleotide binding]; other site 338969005925 GTPase Era; Reviewed; Region: era; PRK00089 338969005926 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 338969005927 G1 box; other site 338969005928 GTP/Mg2+ binding site [chemical binding]; other site 338969005929 Switch I region; other site 338969005930 G2 box; other site 338969005931 Switch II region; other site 338969005932 G3 box; other site 338969005933 G4 box; other site 338969005934 G5 box; other site 338969005935 KH domain; Region: KH_2; pfam07650 338969005936 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 338969005937 active site 338969005938 Forkhead N-terminal region; Region: Fork_head_N; pfam08430 338969005939 RelB antitoxin; Region: RelB; cl01171 338969005940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 338969005941 Recombination protein O N terminal; Region: RecO_N; pfam11967 338969005942 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 338969005943 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 338969005944 active site 338969005945 hydrophilic channel; other site 338969005946 dimerization interface [polypeptide binding]; other site 338969005947 catalytic residues [active] 338969005948 active site lid [active] 338969005949 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 338969005950 beta-hexosaminidase; Provisional; Region: PRK05337 338969005951 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 338969005952 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969005953 putative substrate translocation pore; other site 338969005954 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 338969005955 putative rRNA binding site [nucleotide binding]; other site 338969005956 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 338969005957 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 338969005958 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 338969005959 Walker A/P-loop; other site 338969005960 ATP binding site [chemical binding]; other site 338969005961 Q-loop/lid; other site 338969005962 ABC transporter signature motif; other site 338969005963 Walker B; other site 338969005964 D-loop; other site 338969005965 H-loop/switch region; other site 338969005966 TOBE-like domain; Region: TOBE_3; pfam12857 338969005967 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 338969005968 dimer interface [polypeptide binding]; other site 338969005969 conserved gate region; other site 338969005970 putative PBP binding loops; other site 338969005971 ABC-ATPase subunit interface; other site 338969005972 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 338969005973 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 338969005974 dimer interface [polypeptide binding]; other site 338969005975 conserved gate region; other site 338969005976 putative PBP binding loops; other site 338969005977 ABC-ATPase subunit interface; other site 338969005978 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 338969005979 Serine hydrolase; Region: Ser_hydrolase; pfam06821 338969005980 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338969005981 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 338969005982 NmrA (a transcriptional regulator) and triphenylmethane reductase (TMR) like proteins, subgroup 1, atypical (a) SDRs; Region: NmrA_TMR_like_1_SDR_a; cd05231 338969005983 putative NADP binding site [chemical binding]; other site 338969005984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969005985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969005986 response regulator PleD; Reviewed; Region: pleD; PRK09581 338969005987 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 338969005988 active site 338969005989 phosphorylation site [posttranslational modification] 338969005990 intermolecular recognition site; other site 338969005991 dimerization interface [polypeptide binding]; other site 338969005992 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969005993 putative active site [active] 338969005994 heme pocket [chemical binding]; other site 338969005995 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969005996 metal binding site [ion binding]; metal-binding site 338969005997 active site 338969005998 I-site; other site 338969005999 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969006000 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 338969006001 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338969006002 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006003 putative active site [active] 338969006004 heme pocket [chemical binding]; other site 338969006005 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 338969006006 dimer interface [polypeptide binding]; other site 338969006007 phosphorylation site [posttranslational modification] 338969006008 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 338969006009 ATP binding site [chemical binding]; other site 338969006010 Mg2+ binding site [ion binding]; other site 338969006011 G-X-G motif; other site 338969006012 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 338969006013 active site 338969006014 phosphorylation site [posttranslational modification] 338969006015 intermolecular recognition site; other site 338969006016 dimerization interface [polypeptide binding]; other site 338969006017 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969006018 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 338969006019 active site 338969006020 phosphorylation site [posttranslational modification] 338969006021 intermolecular recognition site; other site 338969006022 dimerization interface [polypeptide binding]; other site 338969006023 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 338969006024 putative binding surface; other site 338969006025 active site 338969006026 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 338969006027 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 338969006028 dimer interface [polypeptide binding]; other site 338969006029 conserved gate region; other site 338969006030 putative PBP binding loops; other site 338969006031 ABC-ATPase subunit interface; other site 338969006032 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 338969006033 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 338969006034 Walker A/P-loop; other site 338969006035 ATP binding site [chemical binding]; other site 338969006036 Q-loop/lid; other site 338969006037 ABC transporter signature motif; other site 338969006038 Walker B; other site 338969006039 D-loop; other site 338969006040 H-loop/switch region; other site 338969006041 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 338969006042 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 338969006043 active site 338969006044 non-prolyl cis peptide bond; other site 338969006045 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 338969006046 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 338969006047 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 338969006048 Walker A/P-loop; other site 338969006049 ATP binding site [chemical binding]; other site 338969006050 Q-loop/lid; other site 338969006051 ABC transporter signature motif; other site 338969006052 Walker B; other site 338969006053 D-loop; other site 338969006054 H-loop/switch region; other site 338969006055 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 338969006056 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 338969006057 dimer interface [polypeptide binding]; other site 338969006058 conserved gate region; other site 338969006059 putative PBP binding loops; other site 338969006060 ABC-ATPase subunit interface; other site 338969006061 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 338969006062 active site 338969006063 dimer interface [polypeptide binding]; other site 338969006064 non-prolyl cis peptide bond; other site 338969006065 insertion regions; other site 338969006066 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 338969006067 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 338969006068 substrate binding pocket [chemical binding]; other site 338969006069 membrane-bound complex binding site; other site 338969006070 hinge residues; other site 338969006071 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 338969006072 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 338969006073 substrate binding pocket [chemical binding]; other site 338969006074 membrane-bound complex binding site; other site 338969006075 hinge residues; other site 338969006076 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338969006077 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 338969006078 substrate binding pocket [chemical binding]; other site 338969006079 membrane-bound complex binding site; other site 338969006080 hinge residues; other site 338969006081 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 338969006082 AAA domain; Region: AAA_17; cl19128 338969006083 AAA domain; Region: AAA_33; pfam13671 338969006084 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 338969006085 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 338969006086 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 338969006087 dimer interface [polypeptide binding]; other site 338969006088 putative anticodon binding site; other site 338969006089 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 338969006090 motif 1; other site 338969006091 active site 338969006092 motif 2; other site 338969006093 motif 3; other site 338969006094 YGGT family; Region: YGGT; pfam02325 338969006095 YGGT family; Region: YGGT; pfam02325 338969006096 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 338969006097 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 338969006098 substrate binding site [chemical binding]; other site 338969006099 active site 338969006100 catalytic residues [active] 338969006101 heterodimer interface [polypeptide binding]; other site 338969006102 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 338969006103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969006104 catalytic residue [active] 338969006105 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 338969006106 active site 338969006107 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 338969006108 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 338969006109 dimerization interface 3.5A [polypeptide binding]; other site 338969006110 active site 338969006111 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 338969006112 FimV N-terminal domain; Region: FimV_core; TIGR03505 338969006113 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 338969006114 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 338969006115 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 338969006116 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 338969006117 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 338969006118 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 338969006119 substrate binding site [chemical binding]; other site 338969006120 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 338969006121 substrate binding site [chemical binding]; other site 338969006122 ligand binding site [chemical binding]; other site 338969006123 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 338969006124 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 338969006125 dimer interface [polypeptide binding]; other site 338969006126 active site 338969006127 citrylCoA binding site [chemical binding]; other site 338969006128 NADH binding [chemical binding]; other site 338969006129 cationic pore residues; other site 338969006130 oxalacetate/citrate binding site [chemical binding]; other site 338969006131 coenzyme A binding site [chemical binding]; other site 338969006132 catalytic triad [active] 338969006133 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 338969006134 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 338969006135 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 338969006136 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 338969006137 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 338969006138 L-aspartate oxidase; Provisional; Region: PRK06175 338969006139 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 338969006140 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 338969006141 SdhC subunit interface [polypeptide binding]; other site 338969006142 proximal heme binding site [chemical binding]; other site 338969006143 cardiolipin binding site; other site 338969006144 Iron-sulfur protein interface; other site 338969006145 proximal quinone binding site [chemical binding]; other site 338969006146 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 338969006147 Iron-sulfur protein interface; other site 338969006148 proximal quinone binding site [chemical binding]; other site 338969006149 SdhD (CybS) interface [polypeptide binding]; other site 338969006150 proximal heme binding site [chemical binding]; other site 338969006151 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 338969006152 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969006153 DNA-binding site [nucleotide binding]; DNA binding site 338969006154 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 338969006155 malate dehydrogenase; Provisional; Region: PRK05442 338969006156 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 338969006157 NAD(P) binding site [chemical binding]; other site 338969006158 dimer interface [polypeptide binding]; other site 338969006159 malate binding site [chemical binding]; other site 338969006160 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 338969006161 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 338969006162 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 338969006163 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 338969006164 substrate binding site [chemical binding]; other site 338969006165 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 338969006166 substrate binding site [chemical binding]; other site 338969006167 ligand binding site [chemical binding]; other site 338969006168 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 338969006169 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 338969006170 active site 1 [active] 338969006171 dimer interface [polypeptide binding]; other site 338969006172 hexamer interface [polypeptide binding]; other site 338969006173 active site 2 [active] 338969006174 Predicted transporter component [General function prediction only]; Region: COG2391 338969006175 Sulphur transport; Region: Sulf_transp; pfam04143 338969006176 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 338969006177 Predicted transporter component [General function prediction only]; Region: COG2391 338969006178 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 338969006179 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 338969006180 S-adenosylmethionine binding site [chemical binding]; other site 338969006181 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 338969006182 FMN binding site [chemical binding]; other site 338969006183 active site 338969006184 substrate binding site [chemical binding]; other site 338969006185 catalytic residue [active] 338969006186 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 338969006187 putative metal binding site [ion binding]; other site 338969006188 Restriction endonuclease; Region: Mrr_cat; pfam04471 338969006189 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 338969006190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338969006191 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 338969006192 non-specific DNA binding site [nucleotide binding]; other site 338969006193 salt bridge; other site 338969006194 sequence-specific DNA binding site [nucleotide binding]; other site 338969006195 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 338969006196 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 338969006197 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338969006198 active site 338969006199 nucleotide binding site [chemical binding]; other site 338969006200 HIGH motif; other site 338969006201 KMSKS motif; other site 338969006202 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 338969006203 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 338969006204 active site 338969006205 phosphorylation site [posttranslational modification] 338969006206 intermolecular recognition site; other site 338969006207 dimerization interface [polypeptide binding]; other site 338969006208 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006209 PAS fold; Region: PAS_3; pfam08447 338969006210 putative active site [active] 338969006211 heme pocket [chemical binding]; other site 338969006212 GAF domain; Region: GAF_2; pfam13185 338969006213 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969006214 metal binding site [ion binding]; metal-binding site 338969006215 active site 338969006216 I-site; other site 338969006217 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969006218 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969006219 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 338969006220 active site 338969006221 phosphorylation site [posttranslational modification] 338969006222 intermolecular recognition site; other site 338969006223 dimerization interface [polypeptide binding]; other site 338969006224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 338969006225 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 338969006226 dimerization interface [polypeptide binding]; other site 338969006227 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 338969006228 dimer interface [polypeptide binding]; other site 338969006229 phosphorylation site [posttranslational modification] 338969006230 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 338969006231 ATP binding site [chemical binding]; other site 338969006232 Mg2+ binding site [ion binding]; other site 338969006233 G-X-G motif; other site 338969006234 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 338969006235 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 338969006236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969006237 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969006238 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 338969006239 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 338969006240 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 338969006241 MutS domain I; Region: MutS_I; pfam01624 338969006242 MutS domain II; Region: MutS_II; pfam05188 338969006243 MutS domain III; Region: MutS_III; pfam05192 338969006244 MutS domain V; Region: MutS_V; pfam00488 338969006245 Walker A/P-loop; other site 338969006246 ATP binding site [chemical binding]; other site 338969006247 Q-loop/lid; other site 338969006248 ABC transporter signature motif; other site 338969006249 Walker B; other site 338969006250 D-loop; other site 338969006251 H-loop/switch region; other site 338969006252 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969006253 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969006254 Walker A/P-loop; other site 338969006255 ATP binding site [chemical binding]; other site 338969006256 Q-loop/lid; other site 338969006257 ABC transporter signature motif; other site 338969006258 Walker B; other site 338969006259 D-loop; other site 338969006260 H-loop/switch region; other site 338969006261 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969006262 TM-ABC transporter signature motif; other site 338969006263 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969006264 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969006265 Walker A/P-loop; other site 338969006266 ATP binding site [chemical binding]; other site 338969006267 Q-loop/lid; other site 338969006268 ABC transporter signature motif; other site 338969006269 Walker B; other site 338969006270 D-loop; other site 338969006271 H-loop/switch region; other site 338969006272 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969006273 TM-ABC transporter signature motif; other site 338969006274 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 338969006275 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969006276 putative ligand binding site [chemical binding]; other site 338969006277 Transcriptional regulators [Transcription]; Region: GntR; COG1802 338969006278 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969006279 DNA-binding site [nucleotide binding]; DNA binding site 338969006280 FCD domain; Region: FCD; pfam07729 338969006281 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 338969006282 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 338969006283 DctM-like transporters; Region: DctM; pfam06808 338969006284 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 338969006285 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 338969006286 Coenzyme A transferase; Region: CoA_trans; cl17247 338969006287 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 338969006288 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 338969006289 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 338969006290 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 338969006291 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 338969006292 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 338969006293 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 338969006294 Patatin-like phospholipase; Region: Patatin; pfam01734 338969006295 active site 338969006296 nucleophile elbow; other site 338969006297 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 338969006298 Bacterial SH3 domain; Region: SH3_3; pfam08239 338969006299 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 338969006300 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 338969006301 dimer interface [polypeptide binding]; other site 338969006302 conserved gate region; other site 338969006303 putative PBP binding loops; other site 338969006304 ABC-ATPase subunit interface; other site 338969006305 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 338969006306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969006307 Walker A/P-loop; other site 338969006308 ATP binding site [chemical binding]; other site 338969006309 Q-loop/lid; other site 338969006310 ABC transporter signature motif; other site 338969006311 Walker B; other site 338969006312 D-loop; other site 338969006313 H-loop/switch region; other site 338969006314 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 338969006315 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 338969006316 dimer interface [polypeptide binding]; other site 338969006317 conserved gate region; other site 338969006318 putative PBP binding loops; other site 338969006319 ABC-ATPase subunit interface; other site 338969006320 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 338969006321 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 338969006322 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 338969006323 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 338969006324 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 338969006325 Walker A/P-loop; other site 338969006326 ATP binding site [chemical binding]; other site 338969006327 Q-loop/lid; other site 338969006328 ABC transporter signature motif; other site 338969006329 Walker B; other site 338969006330 D-loop; other site 338969006331 H-loop/switch region; other site 338969006332 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 338969006333 FeS assembly protein SufD; Region: sufD; TIGR01981 338969006334 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 338969006335 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969006336 catalytic residue [active] 338969006337 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 338969006338 trimerization site [polypeptide binding]; other site 338969006339 active site 338969006340 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 338969006341 NifU-like domain; Region: NifU; cl00484 338969006342 Rrf2 family protein; Region: rrf2_super; TIGR00738 338969006343 Transcriptional regulator; Region: Rrf2; cl17282 338969006344 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 338969006345 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 338969006346 ligand binding site [chemical binding]; other site 338969006347 NAD binding site [chemical binding]; other site 338969006348 tetramer interface [polypeptide binding]; other site 338969006349 catalytic site [active] 338969006350 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 338969006351 L-serine binding site [chemical binding]; other site 338969006352 ACT domain interface; other site 338969006353 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 338969006354 transcriptional regulator NarL; Provisional; Region: PRK10651 338969006355 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 338969006356 active site 338969006357 phosphorylation site [posttranslational modification] 338969006358 intermolecular recognition site; other site 338969006359 dimerization interface [polypeptide binding]; other site 338969006360 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 338969006361 DNA binding residues [nucleotide binding] 338969006362 dimerization interface [polypeptide binding]; other site 338969006363 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 338969006364 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 338969006365 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 338969006366 dimerization interface [polypeptide binding]; other site 338969006367 Histidine kinase; Region: HisKA_3; pfam07730 338969006368 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 338969006369 ATP binding site [chemical binding]; other site 338969006370 Mg2+ binding site [ion binding]; other site 338969006371 G-X-G motif; other site 338969006372 beta-ketothiolase; Provisional; Region: PRK09051 338969006373 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969006374 dimer interface [polypeptide binding]; other site 338969006375 active site 338969006376 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969006377 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 338969006378 active site 338969006379 phosphorylation site [posttranslational modification] 338969006380 intermolecular recognition site; other site 338969006381 dimerization interface [polypeptide binding]; other site 338969006382 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969006383 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 338969006384 active site 338969006385 phosphorylation site [posttranslational modification] 338969006386 intermolecular recognition site; other site 338969006387 dimerization interface [polypeptide binding]; other site 338969006388 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 338969006389 DNA binding residues [nucleotide binding] 338969006390 dimerization interface [polypeptide binding]; other site 338969006391 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 338969006392 Histidine kinase; Region: HisKA_3; pfam07730 338969006393 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 338969006394 ATP binding site [chemical binding]; other site 338969006395 Mg2+ binding site [ion binding]; other site 338969006396 G-X-G motif; other site 338969006397 hypothetical protein; Provisional; Region: PRK13682 338969006398 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 338969006399 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 338969006400 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 338969006401 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 338969006402 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 338969006403 outer membrane protein A; Reviewed; Region: PRK10808 338969006404 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 338969006405 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338969006406 ligand binding site [chemical binding]; other site 338969006407 Rrf2 family protein; Region: rrf2_super; TIGR00738 338969006408 Transcriptional regulator; Region: Rrf2; cl17282 338969006409 NnrS protein; Region: NnrS; pfam05940 338969006410 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 338969006411 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 338969006412 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 338969006413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969006414 metal binding site [ion binding]; metal-binding site 338969006415 active site 338969006416 I-site; other site 338969006417 CheC-like family; Region: CheC; pfam04509 338969006418 Chemotaxis phosphatase CheX; Region: CheX; cl15816 338969006419 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969006420 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 338969006421 active site 338969006422 phosphorylation site [posttranslational modification] 338969006423 intermolecular recognition site; other site 338969006424 dimerization interface [polypeptide binding]; other site 338969006425 enoyl-CoA hydratase; Provisional; Region: PRK06142 338969006426 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 338969006427 substrate binding site [chemical binding]; other site 338969006428 oxyanion hole (OAH) forming residues; other site 338969006429 trimer interface [polypeptide binding]; other site 338969006430 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 338969006431 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 338969006432 active site 338969006433 FMN binding site [chemical binding]; other site 338969006434 2,4-decadienoyl-CoA binding site; other site 338969006435 catalytic residue [active] 338969006436 4Fe-4S cluster binding site [ion binding]; other site 338969006437 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969006438 SnoaL-like domain; Region: SnoaL_2; pfam12680 338969006439 Predicted transcriptional regulators [Transcription]; Region: COG1695 338969006440 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 338969006441 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_27; cd04640 338969006442 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 338969006443 putative substrate translocation pore; other site 338969006444 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 338969006445 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 338969006446 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 338969006447 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 338969006448 probable active site [active] 338969006449 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 338969006450 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 338969006451 S-adenosylmethionine binding site [chemical binding]; other site 338969006452 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 338969006453 Na binding site [ion binding]; other site 338969006454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969006455 metal binding site [ion binding]; metal-binding site 338969006456 active site 338969006457 I-site; other site 338969006458 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969006459 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; cl17220 338969006460 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 338969006461 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 338969006462 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338969006463 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338969006464 RbsD / FucU transport protein family; Region: RbsD_FucU; pfam05025 338969006465 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969006466 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 338969006467 Walker A/P-loop; other site 338969006468 ATP binding site [chemical binding]; other site 338969006469 Q-loop/lid; other site 338969006470 ABC transporter signature motif; other site 338969006471 Walker B; other site 338969006472 D-loop; other site 338969006473 H-loop/switch region; other site 338969006474 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 338969006475 TM-ABC transporter signature motif; other site 338969006476 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 338969006477 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 338969006478 ligand binding site [chemical binding]; other site 338969006479 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 338969006480 substrate binding site [chemical binding]; other site 338969006481 ATP binding site [chemical binding]; other site 338969006482 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 338969006483 active site 338969006484 nucleotide binding site [chemical binding]; other site 338969006485 HIGH motif; other site 338969006486 KMSKS motif; other site 338969006487 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969006488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969006489 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 338969006490 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 338969006491 dimerization interface [polypeptide binding]; other site 338969006492 Immunogenic region of nsp2 protein of arterivirus polyprotein; Region: NSP2-B_epitope; pfam14757 338969006493 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 338969006494 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 338969006495 putative active site [active] 338969006496 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 338969006497 ATP binding site [chemical binding]; other site 338969006498 putative Mg++ binding site [ion binding]; other site 338969006499 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 338969006500 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 338969006501 catalytic triad [active] 338969006502 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 338969006503 aminotransferase AlaT; Validated; Region: PRK09265 338969006504 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 338969006505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969006506 homodimer interface [polypeptide binding]; other site 338969006507 catalytic residue [active] 338969006508 homoserine dehydrogenase; Provisional; Region: PRK06349 338969006509 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 338969006510 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 338969006511 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 338969006512 threonine synthase; Validated; Region: PRK09225 338969006513 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 338969006514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969006515 catalytic residue [active] 338969006516 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 338969006517 Walker A motif; other site 338969006518 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 338969006519 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 338969006520 dimer interface [polypeptide binding]; other site 338969006521 putative functional site; other site 338969006522 putative MPT binding site; other site 338969006523 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 338969006524 MoaE interaction surface [polypeptide binding]; other site 338969006525 MoeB interaction surface [polypeptide binding]; other site 338969006526 thiocarboxylated glycine; other site 338969006527 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 338969006528 MoaE homodimer interface [polypeptide binding]; other site 338969006529 MoaD interaction [polypeptide binding]; other site 338969006530 active site residues [active] 338969006531 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 338969006532 Clp amino terminal domain; Region: Clp_N; pfam02861 338969006533 Clp amino terminal domain; Region: Clp_N; pfam02861 338969006534 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 338969006535 Walker A motif; other site 338969006536 ATP binding site [chemical binding]; other site 338969006537 Walker B motif; other site 338969006538 arginine finger; other site 338969006539 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 338969006540 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 338969006541 Walker A motif; other site 338969006542 ATP binding site [chemical binding]; other site 338969006543 Walker B motif; other site 338969006544 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 338969006545 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 338969006546 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 338969006547 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 338969006548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969006549 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 338969006550 dimerization interface [polypeptide binding]; other site 338969006551 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 338969006552 enoyl-CoA hydratase; Provisional; Region: PRK06144 338969006553 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 338969006554 substrate binding site [chemical binding]; other site 338969006555 oxyanion hole (OAH) forming residues; other site 338969006556 trimer interface [polypeptide binding]; other site 338969006557 malonyl-CoA synthase; Validated; Region: PRK07514 338969006558 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 338969006559 acyl-activating enzyme (AAE) consensus motif; other site 338969006560 active site 338969006561 AMP binding site [chemical binding]; other site 338969006562 CoA binding site [chemical binding]; other site 338969006563 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 338969006564 Ligand Binding Site [chemical binding]; other site 338969006565 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338969006566 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 338969006567 metal-binding site [ion binding] 338969006568 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338969006569 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 338969006570 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969006571 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 338969006572 active site 338969006573 phosphorylation site [posttranslational modification] 338969006574 intermolecular recognition site; other site 338969006575 dimerization interface [polypeptide binding]; other site 338969006576 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006577 PAS domain; Region: PAS_9; pfam13426 338969006578 putative active site [active] 338969006579 heme pocket [chemical binding]; other site 338969006580 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006581 PAS fold; Region: PAS_3; pfam08447 338969006582 putative active site [active] 338969006583 heme pocket [chemical binding]; other site 338969006584 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969006585 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 338969006586 DNA binding residues [nucleotide binding] 338969006587 dimerization interface [polypeptide binding]; other site 338969006588 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 338969006589 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 338969006590 Low-spin heme binding site [chemical binding]; other site 338969006591 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 338969006592 D-pathway; other site 338969006593 Putative water exit pathway; other site 338969006594 Binuclear center (active site) [active] 338969006595 K-pathway; other site 338969006596 Putative proton exit pathway; other site 338969006597 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 338969006598 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 338969006599 N-terminal domain of cytochrome oxidase-cbb3, FixP; Region: FixP_N; pfam14715 338969006600 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 338969006601 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 338969006602 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 338969006603 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 338969006604 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338969006605 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 338969006606 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; cl19102 338969006607 IG-like fold at C-terminal of FixG, putative oxidoreductase; Region: FixG_C; pfam11614 338969006608 FixH; Region: FixH; cl19376 338969006609 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 338969006610 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 338969006611 ligand binding site [chemical binding]; other site 338969006612 flexible hinge region; other site 338969006613 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 338969006614 putative switch regulator; other site 338969006615 non-specific DNA interactions [nucleotide binding]; other site 338969006616 DNA binding site [nucleotide binding] 338969006617 sequence specific DNA binding site [nucleotide binding]; other site 338969006618 putative cAMP binding site [chemical binding]; other site 338969006619 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 338969006620 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 338969006621 FeS/SAM binding site; other site 338969006622 HemN C-terminal domain; Region: HemN_C; pfam06969 338969006623 Cytochrome C biogenesis protein transmembrane region; Region: DsbD_2; pfam13386 338969006624 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969006625 RNA polymerase recycling family C-terminal; Region: RapA_C; pfam12137 338969006626 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969006627 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338969006628 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338969006629 FtsX-like permease family; Region: FtsX; pfam02687 338969006630 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 338969006631 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338969006632 FtsX-like permease family; Region: FtsX; pfam02687 338969006633 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338969006634 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338969006635 Walker A/P-loop; other site 338969006636 ATP binding site [chemical binding]; other site 338969006637 Q-loop/lid; other site 338969006638 ABC transporter signature motif; other site 338969006639 Walker B; other site 338969006640 D-loop; other site 338969006641 H-loop/switch region; other site 338969006642 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 338969006643 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 338969006644 FMN binding site [chemical binding]; other site 338969006645 active site 338969006646 catalytic residues [active] 338969006647 substrate binding site [chemical binding]; other site 338969006648 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969006649 EamA-like transporter family; Region: EamA; pfam00892 338969006650 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 338969006651 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969006652 putative substrate translocation pore; other site 338969006653 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 338969006654 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 338969006655 putative chaperone; Provisional; Region: PRK11678 338969006656 nucleotide binding site [chemical binding]; other site 338969006657 putative NEF/HSP70 interaction site [polypeptide binding]; other site 338969006658 SBD interface [polypeptide binding]; other site 338969006659 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 338969006660 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 338969006661 peptide binding site [polypeptide binding]; other site 338969006662 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 338969006663 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969006664 Walker A/P-loop; other site 338969006665 ATP binding site [chemical binding]; other site 338969006666 Q-loop/lid; other site 338969006667 ABC transporter signature motif; other site 338969006668 Walker B; other site 338969006669 D-loop; other site 338969006670 H-loop/switch region; other site 338969006671 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969006672 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 338969006673 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969006674 Walker A/P-loop; other site 338969006675 ATP binding site [chemical binding]; other site 338969006676 Q-loop/lid; other site 338969006677 ABC transporter signature motif; other site 338969006678 Walker B; other site 338969006679 D-loop; other site 338969006680 H-loop/switch region; other site 338969006681 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969006682 dipeptide transporter; Provisional; Region: PRK10913 338969006683 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 338969006684 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 338969006685 dimer interface [polypeptide binding]; other site 338969006686 conserved gate region; other site 338969006687 putative PBP binding loops; other site 338969006688 ABC-ATPase subunit interface; other site 338969006689 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 338969006690 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 338969006691 dimer interface [polypeptide binding]; other site 338969006692 conserved gate region; other site 338969006693 putative PBP binding loops; other site 338969006694 ABC-ATPase subunit interface; other site 338969006695 SWIB/MDM2 domain; Region: SWIB; pfam02201 338969006696 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 338969006697 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969006698 EamA-like transporter family; Region: EamA; pfam00892 338969006699 EamA-like transporter family; Region: EamA; pfam00892 338969006700 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 338969006701 Ligand binding site [chemical binding]; other site 338969006702 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 338969006703 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 338969006704 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 338969006705 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 338969006706 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 338969006707 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969006708 active site 338969006709 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 338969006710 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 338969006711 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 338969006712 FMN binding site [chemical binding]; other site 338969006713 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 338969006714 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 338969006715 active site residue [active] 338969006716 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 338969006717 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 338969006718 Predicted dehydrogenase [General function prediction only]; Region: COG5322 338969006719 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 338969006720 NAD(P) binding pocket [chemical binding]; other site 338969006721 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 338969006722 putative active site [active] 338969006723 metal binding site [ion binding]; metal-binding site 338969006724 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 338969006725 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338969006726 Beta-Casp domain; Region: Beta-Casp; smart01027 338969006727 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 338969006728 chaperone protein DnaJ; Provisional; Region: PRK10767 338969006729 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 338969006730 HSP70 interaction site [polypeptide binding]; other site 338969006731 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 338969006732 substrate binding site [polypeptide binding]; other site 338969006733 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 338969006734 Zn binding sites [ion binding]; other site 338969006735 dimer interface [polypeptide binding]; other site 338969006736 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 338969006737 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338969006738 nucleotide binding site [chemical binding]; other site 338969006739 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 338969006740 dimer interface [polypeptide binding]; other site 338969006741 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 338969006742 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 338969006743 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 338969006744 Predicted transcriptional regulators [Transcription]; Region: COG1733 338969006745 dimerization interface [polypeptide binding]; other site 338969006746 putative DNA binding site [nucleotide binding]; other site 338969006747 putative Zn2+ binding site [ion binding]; other site 338969006748 Late competence development protein ComFB; Region: ComFB; pfam10719 338969006749 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 338969006750 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 338969006751 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 338969006752 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 338969006753 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 338969006754 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 338969006755 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 338969006756 FeS/SAM binding site; other site 338969006757 ribonuclease R; Region: RNase_R; TIGR02063 338969006758 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 338969006759 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 338969006760 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 338969006761 RNA binding site [nucleotide binding]; other site 338969006762 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 338969006763 classical (c) SDRs; Region: SDR_c; cd05233 338969006764 NAD(P) binding site [chemical binding]; other site 338969006765 active site 338969006766 PAS domain; Region: PAS; smart00091 338969006767 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338969006768 sensory histidine kinase AtoS; Provisional; Region: PRK11360 338969006769 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 338969006770 ATP binding site [chemical binding]; other site 338969006771 Mg2+ binding site [ion binding]; other site 338969006772 G-X-G motif; other site 338969006773 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 338969006774 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969006775 Zn2+ binding site [ion binding]; other site 338969006776 Mg2+ binding site [ion binding]; other site 338969006777 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 338969006778 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 338969006779 active site 338969006780 phosphorylation site [posttranslational modification] 338969006781 intermolecular recognition site; other site 338969006782 dimerization interface [polypeptide binding]; other site 338969006783 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969006784 Zn2+ binding site [ion binding]; other site 338969006785 Mg2+ binding site [ion binding]; other site 338969006786 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 338969006787 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969006788 Zn2+ binding site [ion binding]; other site 338969006789 Mg2+ binding site [ion binding]; other site 338969006790 PAS fold; Region: PAS_4; pfam08448 338969006791 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006792 putative active site [active] 338969006793 heme pocket [chemical binding]; other site 338969006794 GAF domain; Region: GAF_2; pfam13185 338969006795 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006796 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 338969006797 putative active site [active] 338969006798 heme pocket [chemical binding]; other site 338969006799 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006800 putative active site [active] 338969006801 heme pocket [chemical binding]; other site 338969006802 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969006803 metal binding site [ion binding]; metal-binding site 338969006804 active site 338969006805 I-site; other site 338969006806 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969006807 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 338969006808 active site 338969006809 phosphorylation site [posttranslational modification] 338969006810 intermolecular recognition site; other site 338969006811 dimerization interface [polypeptide binding]; other site 338969006812 HAMP domain; Region: HAMP; pfam00672 338969006813 PAS domain S-box; Region: sensory_box; TIGR00229 338969006814 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006815 putative active site [active] 338969006816 heme pocket [chemical binding]; other site 338969006817 GAF domain; Region: GAF_2; pfam13185 338969006818 PAS fold; Region: PAS; pfam00989 338969006819 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006820 putative active site [active] 338969006821 heme pocket [chemical binding]; other site 338969006822 RNase II stability modulator; Provisional; Region: PRK10060 338969006823 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006824 putative active site [active] 338969006825 heme pocket [chemical binding]; other site 338969006826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969006827 metal binding site [ion binding]; metal-binding site 338969006828 active site 338969006829 I-site; other site 338969006830 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969006831 putative carbohydrate kinase; Provisional; Region: PRK10565 338969006832 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 338969006833 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 338969006834 putative substrate binding site [chemical binding]; other site 338969006835 putative ATP binding site [chemical binding]; other site 338969006836 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 338969006837 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 338969006838 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969006839 Zn2+ binding site [ion binding]; other site 338969006840 Mg2+ binding site [ion binding]; other site 338969006841 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 338969006842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969006843 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969006844 amidase; Provisional; Region: PRK07056 338969006845 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 338969006846 rRNA interaction site [nucleotide binding]; other site 338969006847 S8 interaction site; other site 338969006848 putative laminin-1 binding site; other site 338969006849 elongation factor Ts; Provisional; Region: tsf; PRK09377 338969006850 UBA/TS-N domain; Region: UBA; pfam00627 338969006851 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 338969006852 putative nucleotide binding site [chemical binding]; other site 338969006853 uridine monophosphate binding site [chemical binding]; other site 338969006854 homohexameric interface [polypeptide binding]; other site 338969006855 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 338969006856 hinge region; other site 338969006857 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 338969006858 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 338969006859 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 338969006860 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 338969006861 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 338969006862 zinc metallopeptidase RseP; Provisional; Region: PRK10779 338969006863 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 338969006864 active site 338969006865 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 338969006866 protein binding site [polypeptide binding]; other site 338969006867 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 338969006868 putative substrate binding region [chemical binding]; other site 338969006869 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 338969006870 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338969006871 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338969006872 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338969006873 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338969006874 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338969006875 Surface antigen; Region: Bac_surface_Ag; pfam01103 338969006876 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 338969006877 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 338969006878 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 338969006879 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 338969006880 trimer interface [polypeptide binding]; other site 338969006881 active site 338969006882 UDP-GlcNAc binding site [chemical binding]; other site 338969006883 lipid binding site [chemical binding]; lipid-binding site 338969006884 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 338969006885 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 338969006886 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 338969006887 active site 338969006888 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 338969006889 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 338969006890 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 338969006891 RNA/DNA hybrid binding site [nucleotide binding]; other site 338969006892 active site 338969006893 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 338969006894 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 338969006895 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 338969006896 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 338969006897 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 338969006898 catalytic site [active] 338969006899 subunit interface [polypeptide binding]; other site 338969006900 leucine export protein LeuE; Provisional; Region: PRK10958 338969006901 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 338969006902 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338969006903 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969006904 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 338969006905 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338969006906 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969006907 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 338969006908 IMP binding site; other site 338969006909 dimer interface [polypeptide binding]; other site 338969006910 interdomain contacts; other site 338969006911 partial ornithine binding site; other site 338969006912 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 338969006913 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 338969006914 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338969006915 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 338969006916 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 338969006917 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 338969006918 FtsH Extracellular; Region: FtsH_ext; pfam06480 338969006919 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 338969006920 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 338969006921 Walker A motif; other site 338969006922 ATP binding site [chemical binding]; other site 338969006923 Walker B motif; other site 338969006924 arginine finger; other site 338969006925 Peptidase family M41; Region: Peptidase_M41; pfam01434 338969006926 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 338969006927 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 338969006928 substrate binding pocket [chemical binding]; other site 338969006929 dimer interface [polypeptide binding]; other site 338969006930 inhibitor binding site; inhibition site 338969006931 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 338969006932 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 338969006933 active site 338969006934 substrate binding site [chemical binding]; other site 338969006935 metal binding site [ion binding]; metal-binding site 338969006936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969006937 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 338969006938 Coenzyme A binding pocket [chemical binding]; other site 338969006939 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 338969006940 PAS fold; Region: PAS_4; pfam08448 338969006941 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969006942 putative active site [active] 338969006943 heme pocket [chemical binding]; other site 338969006944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969006945 metal binding site [ion binding]; metal-binding site 338969006946 active site 338969006947 I-site; other site 338969006948 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969006949 polyphosphate kinase; Provisional; Region: PRK05443 338969006950 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 338969006951 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 338969006952 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338969006953 putative active site [active] 338969006954 catalytic site [active] 338969006955 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 338969006956 putative domain interface [polypeptide binding]; other site 338969006957 putative active site [active] 338969006958 catalytic site [active] 338969006959 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 338969006960 catalytic core [active] 338969006961 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 338969006962 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 338969006963 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338969006964 putative acyl-acceptor binding pocket; other site 338969006965 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 338969006966 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 338969006967 putative DNA binding site [nucleotide binding]; other site 338969006968 putative Zn2+ binding site [ion binding]; other site 338969006969 AsnC family; Region: AsnC_trans_reg; pfam01037 338969006970 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 338969006971 Uncharacterized conserved protein [Function unknown]; Region: COG3025 338969006972 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 338969006973 putative active site [active] 338969006974 putative metal binding residues [ion binding]; other site 338969006975 signature motif; other site 338969006976 putative triphosphate binding site [ion binding]; other site 338969006977 CHAD domain; Region: CHAD; pfam05235 338969006978 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 338969006979 putative active site [active] 338969006980 Zn binding site [ion binding]; other site 338969006981 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 338969006982 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 338969006983 active site 338969006984 nucleophile elbow; other site 338969006985 ribonuclease D; Provisional; Region: PRK10829 338969006986 pyruvate phosphate dikinase; Provisional; Region: PRK09279 338969006987 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 338969006988 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969006989 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969006990 dimer interface [polypeptide binding]; other site 338969006991 putative CheW interface [polypeptide binding]; other site 338969006992 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969006993 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 338969006994 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338969006995 nucleotidyl binding site; other site 338969006996 metal binding site [ion binding]; metal-binding site 338969006997 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338969006998 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 338969006999 exopolyphosphatase; Region: exo_poly_only; TIGR03706 338969007000 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 338969007001 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 338969007002 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 338969007003 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 338969007004 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 338969007005 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 338969007006 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 338969007007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969007008 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 338969007009 dimerization interface [polypeptide binding]; other site 338969007010 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 338969007011 dimer interface [polypeptide binding]; other site 338969007012 phosphorylation site [posttranslational modification] 338969007013 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 338969007014 ATP binding site [chemical binding]; other site 338969007015 Mg2+ binding site [ion binding]; other site 338969007016 G-X-G motif; other site 338969007017 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 338969007018 active site 338969007019 phosphorylation site [posttranslational modification] 338969007020 intermolecular recognition site; other site 338969007021 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969007022 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 338969007023 active site 338969007024 intermolecular recognition site; other site 338969007025 dimerization interface [polypeptide binding]; other site 338969007026 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 338969007027 DNA binding residues [nucleotide binding] 338969007028 dimerization interface [polypeptide binding]; other site 338969007029 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 338969007030 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 338969007031 putative active site [active] 338969007032 putative PHP Thumb interface [polypeptide binding]; other site 338969007033 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 338969007034 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 338969007035 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 338969007036 generic binding surface II; other site 338969007037 generic binding surface I; other site 338969007038 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 338969007039 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338969007040 ABC transporter; Region: ABC_tran_2; pfam12848 338969007041 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338969007042 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 338969007043 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969007044 Coenzyme A binding pocket [chemical binding]; other site 338969007045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 338969007046 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 338969007047 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 338969007048 S-adenosylmethionine binding site [chemical binding]; other site 338969007049 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 338969007050 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 338969007051 metal binding site [ion binding]; metal-binding site 338969007052 dimer interface [polypeptide binding]; other site 338969007053 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 338969007054 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 338969007055 Walker A motif; other site 338969007056 ATP binding site [chemical binding]; other site 338969007057 Walker B motif; other site 338969007058 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 338969007059 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 338969007060 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 338969007061 trimer interface [polypeptide binding]; other site 338969007062 active site 338969007063 substrate binding site [chemical binding]; other site 338969007064 CoA binding site [chemical binding]; other site 338969007065 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 338969007066 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 338969007067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969007068 homodimer interface [polypeptide binding]; other site 338969007069 catalytic residue [active] 338969007070 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 338969007071 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 338969007072 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 338969007073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969007074 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 338969007075 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 338969007076 metal binding site [ion binding]; metal-binding site 338969007077 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 338969007078 ABC-ATPase subunit interface; other site 338969007079 dimer interface [polypeptide binding]; other site 338969007080 putative PBP binding regions; other site 338969007081 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 338969007082 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 338969007083 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 338969007084 putative DNA binding helix; other site 338969007085 metal binding site 2 [ion binding]; metal-binding site 338969007086 metal binding site 1 [ion binding]; metal-binding site 338969007087 dimer interface [polypeptide binding]; other site 338969007088 structural Zn2+ binding site [ion binding]; other site 338969007089 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969007090 PAS fold; Region: PAS_3; pfam08447 338969007091 putative active site [active] 338969007092 heme pocket [chemical binding]; other site 338969007093 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969007094 PAS domain; Region: PAS_9; pfam13426 338969007095 putative active site [active] 338969007096 heme pocket [chemical binding]; other site 338969007097 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969007098 metal binding site [ion binding]; metal-binding site 338969007099 active site 338969007100 I-site; other site 338969007101 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969007102 Membrane transport protein; Region: Mem_trans; cl09117 338969007103 LysE type translocator; Region: LysE; cl00565 338969007104 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 338969007105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969007106 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 338969007107 dimerization interface [polypeptide binding]; other site 338969007108 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 338969007109 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 338969007110 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 338969007111 phosphogluconate dehydratase; Validated; Region: PRK09054 338969007112 Entner-Doudoroff aldolase; Region: eda; TIGR01182 338969007113 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 338969007114 active site 338969007115 intersubunit interface [polypeptide binding]; other site 338969007116 catalytic residue [active] 338969007117 Patatin-like phospholipase; Region: Patatin; pfam01734 338969007118 nucleophile elbow; other site 338969007119 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 338969007120 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338969007121 Outer membrane efflux protein; Region: OEP; pfam02321 338969007122 Outer membrane efflux protein; Region: OEP; pfam02321 338969007123 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 338969007124 MMPL family; Region: MMPL; cl14618 338969007125 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 338969007126 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338969007127 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969007128 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 338969007129 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969007130 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 338969007131 UGMP family protein; Validated; Region: PRK09604 338969007132 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 338969007133 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 338969007134 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 338969007135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969007136 NAD(P) binding site [chemical binding]; other site 338969007137 active site 338969007138 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969007139 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969007140 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 338969007141 HD domain; Region: HD_4; pfam13328 338969007142 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 338969007143 synthetase active site [active] 338969007144 NTP binding site [chemical binding]; other site 338969007145 metal binding site [ion binding]; metal-binding site 338969007146 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 338969007147 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 338969007148 exonuclease I; Provisional; Region: sbcB; PRK11779 338969007149 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 338969007150 active site 338969007151 catalytic site [active] 338969007152 substrate binding site [chemical binding]; other site 338969007153 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 338969007154 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969007155 active site 338969007156 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 338969007157 hypothetical protein; Validated; Region: PRK00110 338969007158 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 338969007159 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 338969007160 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 338969007161 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 338969007162 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 338969007163 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 338969007164 active site 338969007165 (T/H)XGH motif; other site 338969007166 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 338969007167 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 338969007168 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 338969007169 active site 338969007170 dimer interface [polypeptide binding]; other site 338969007171 ribonuclease G; Provisional; Region: PRK11712 338969007172 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 338969007173 homodimer interface [polypeptide binding]; other site 338969007174 oligonucleotide binding site [chemical binding]; other site 338969007175 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 338969007176 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 338969007177 GDP-Fucose binding site [chemical binding]; other site 338969007178 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 338969007179 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 338969007180 putative active site [active] 338969007181 putative metal binding site [ion binding]; other site 338969007182 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338969007183 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 338969007184 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338969007185 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 338969007186 active site 338969007187 Rhamnan synthesis protein F; Region: RgpF; pfam05045 338969007188 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 338969007189 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 338969007190 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338969007191 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 338969007192 Walker A/P-loop; other site 338969007193 ATP binding site [chemical binding]; other site 338969007194 Q-loop/lid; other site 338969007195 ABC transporter signature motif; other site 338969007196 Walker B; other site 338969007197 D-loop; other site 338969007198 H-loop/switch region; other site 338969007199 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 338969007200 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 338969007201 putative metal binding site; other site 338969007202 translocation protein TolB; Provisional; Region: tolB; PRK02889 338969007203 TolB amino-terminal domain; Region: TolB_N; pfam04052 338969007204 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338969007205 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338969007206 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338969007207 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338969007208 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 338969007209 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338969007210 ligand binding site [chemical binding]; other site 338969007211 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338969007212 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 338969007213 binding surface 338969007214 TPR motif; other site 338969007215 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 338969007216 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 338969007217 putative ATP binding site [chemical binding]; other site 338969007218 putative substrate interface [chemical binding]; other site 338969007219 NlpB/DapX lipoprotein; Region: Lipoprotein_18; cl19507 338969007220 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 338969007221 dimer interface [polypeptide binding]; other site 338969007222 active site 338969007223 catalytic residue [active] 338969007224 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 338969007225 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 338969007226 S-adenosylmethionine binding site [chemical binding]; other site 338969007227 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969007228 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 338969007229 putative substrate translocation pore; other site 338969007230 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 338969007231 NlpC/P60 family; Region: NLPC_P60; pfam00877 338969007232 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 338969007233 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 338969007234 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969007235 oxidative damage protection protein; Provisional; Region: PRK05408 338969007236 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 338969007237 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 338969007238 N-acetylglutamate synthase; Validated; Region: PRK05279 338969007239 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 338969007240 putative feedback inhibition sensing region; other site 338969007241 putative nucleotide binding site [chemical binding]; other site 338969007242 putative substrate binding site [chemical binding]; other site 338969007243 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969007244 Coenzyme A binding pocket [chemical binding]; other site 338969007245 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 338969007246 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 338969007247 ATP binding site [chemical binding]; other site 338969007248 putative Mg++ binding site [ion binding]; other site 338969007249 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 338969007250 nucleotide binding region [chemical binding]; other site 338969007251 ATP-binding site [chemical binding]; other site 338969007252 Helicase associated domain (HA2); Region: HA2; pfam04408 338969007253 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 338969007254 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 338969007255 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 338969007256 Na2 binding site [ion binding]; other site 338969007257 putative substrate binding site 1 [chemical binding]; other site 338969007258 Na binding site 1 [ion binding]; other site 338969007259 putative substrate binding site 2 [chemical binding]; other site 338969007260 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 338969007261 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 338969007262 Cytochrome c; Region: Cytochrom_C; pfam00034 338969007263 Cytochrome c; Region: Cytochrom_C; pfam00034 338969007264 methionine aminotransferase; Validated; Region: PRK09082 338969007265 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 338969007266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969007267 homodimer interface [polypeptide binding]; other site 338969007268 catalytic residue [active] 338969007269 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 338969007270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969007271 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 338969007272 substrate binding site [chemical binding]; other site 338969007273 dimerization interface [polypeptide binding]; other site 338969007274 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 338969007275 putative active site [active] 338969007276 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 338969007277 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338969007278 multifunctional aminopeptidase A; Provisional; Region: PRK00913 338969007279 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 338969007280 interface (dimer of trimers) [polypeptide binding]; other site 338969007281 Substrate-binding/catalytic site; other site 338969007282 Zn-binding sites [ion binding]; other site 338969007283 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 338969007284 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 338969007285 dimerization interface [polypeptide binding]; other site 338969007286 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969007287 ligand binding site [chemical binding]; other site 338969007288 ornithine carbamoyltransferase; Provisional; Region: PRK00779 338969007289 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 338969007290 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 338969007291 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 338969007292 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 338969007293 inhibitor-cofactor binding pocket; inhibition site 338969007294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969007295 catalytic residue [active] 338969007296 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 338969007297 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 338969007298 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 338969007299 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 338969007300 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 338969007301 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 338969007302 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 338969007303 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 338969007304 Orn/Lys/Arg decarboxylase, major domain; Region: OKR_DC_1; pfam01276 338969007305 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969007306 catalytic residue [active] 338969007307 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 338969007308 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 338969007309 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 338969007310 NAD binding site [chemical binding]; other site 338969007311 homotetramer interface [polypeptide binding]; other site 338969007312 homodimer interface [polypeptide binding]; other site 338969007313 substrate binding site [chemical binding]; other site 338969007314 active site 338969007315 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 338969007316 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 338969007317 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 338969007318 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 338969007319 dimer interface [polypeptide binding]; other site 338969007320 conserved gate region; other site 338969007321 putative PBP binding loops; other site 338969007322 ABC-ATPase subunit interface; other site 338969007323 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 338969007324 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 338969007325 dimer interface [polypeptide binding]; other site 338969007326 conserved gate region; other site 338969007327 putative PBP binding loops; other site 338969007328 ABC-ATPase subunit interface; other site 338969007329 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 338969007330 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969007331 Walker A/P-loop; other site 338969007332 ATP binding site [chemical binding]; other site 338969007333 Q-loop/lid; other site 338969007334 ABC transporter signature motif; other site 338969007335 Walker B; other site 338969007336 D-loop; other site 338969007337 H-loop/switch region; other site 338969007338 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 338969007339 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969007340 Walker A/P-loop; other site 338969007341 ATP binding site [chemical binding]; other site 338969007342 Q-loop/lid; other site 338969007343 ABC transporter signature motif; other site 338969007344 Walker B; other site 338969007345 D-loop; other site 338969007346 H-loop/switch region; other site 338969007347 Sm and related proteins; Region: Sm_like; cl00259 338969007348 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 338969007349 putative oligomer interface [polypeptide binding]; other site 338969007350 putative RNA binding site [nucleotide binding]; other site 338969007351 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 338969007352 NusA N-terminal domain; Region: NusA_N; pfam08529 338969007353 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 338969007354 RNA binding site [nucleotide binding]; other site 338969007355 homodimer interface [polypeptide binding]; other site 338969007356 NusA-like KH domain; Region: KH_5; pfam13184 338969007357 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 338969007358 G-X-X-G motif; other site 338969007359 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 338969007360 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 338969007361 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 338969007362 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 338969007363 translation initiation factor IF-2; Validated; Region: infB; PRK05306 338969007364 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 338969007365 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 338969007366 G1 box; other site 338969007367 putative GEF interaction site [polypeptide binding]; other site 338969007368 GTP/Mg2+ binding site [chemical binding]; other site 338969007369 Switch I region; other site 338969007370 G2 box; other site 338969007371 G3 box; other site 338969007372 Switch II region; other site 338969007373 G4 box; other site 338969007374 G5 box; other site 338969007375 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 338969007376 Translation-initiation factor 2; Region: IF-2; pfam11987 338969007377 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 338969007378 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 338969007379 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 338969007380 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 338969007381 RNA binding site [nucleotide binding]; other site 338969007382 active site 338969007383 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 338969007384 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 338969007385 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 338969007386 G1 box; other site 338969007387 putative GEF interaction site [polypeptide binding]; other site 338969007388 GTP/Mg2+ binding site [chemical binding]; other site 338969007389 Switch I region; other site 338969007390 G2 box; other site 338969007391 G3 box; other site 338969007392 Switch II region; other site 338969007393 G4 box; other site 338969007394 G5 box; other site 338969007395 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 338969007396 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 338969007397 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969007398 EamA-like transporter family; Region: EamA; pfam00892 338969007399 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 338969007400 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 338969007401 substrate binding site [chemical binding]; other site 338969007402 oxyanion hole (OAH) forming residues; other site 338969007403 trimer interface [polypeptide binding]; other site 338969007404 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 338969007405 Phasin protein; Region: Phasin_2; pfam09361 338969007406 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 338969007407 active site 338969007408 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 338969007409 putative FMN binding site [chemical binding]; other site 338969007410 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 338969007411 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 338969007412 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 338969007413 dimerization interface [polypeptide binding]; other site 338969007414 ligand binding site [chemical binding]; other site 338969007415 NADP binding site [chemical binding]; other site 338969007416 catalytic site [active] 338969007417 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 338969007418 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 338969007419 acyl-CoA synthetase; Validated; Region: PRK09192 338969007420 acyl-activating enzyme (AAE) consensus motif; other site 338969007421 active site 338969007422 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338969007423 putative acyl-acceptor binding pocket; other site 338969007424 Uncharacterized conserved protein [Function unknown]; Region: COG0398 338969007425 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 338969007426 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 338969007427 Ligand Binding Site [chemical binding]; other site 338969007428 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 338969007429 Ligand Binding Site [chemical binding]; other site 338969007430 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 338969007431 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 338969007432 dimer interface [polypeptide binding]; other site 338969007433 active site residues [active] 338969007434 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 338969007435 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 338969007436 Uncharacterized prokaryotic subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_eoslipins_u1; cd08826 338969007437 trimer interface [polypeptide binding]; other site 338969007438 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 338969007439 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 338969007440 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338969007441 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 338969007442 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 338969007443 putative active site [active] 338969007444 catalytic site [active] 338969007445 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 338969007446 putative active site [active] 338969007447 catalytic site [active] 338969007448 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; cl00250 338969007449 30S subunit binding site; other site 338969007450 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 338969007451 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 338969007452 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 338969007453 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 338969007454 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 338969007455 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 338969007456 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 338969007457 active site 338969007458 catalytic site [active] 338969007459 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 338969007460 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 338969007461 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 338969007462 catalytic site [active] 338969007463 active site 338969007464 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 338969007465 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 338969007466 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 338969007467 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 338969007468 active site 338969007469 catalytic site [active] 338969007470 Conserved TM helix; Region: TM_helix; pfam05552 338969007471 trehalose synthase; Region: treS_nterm; TIGR02456 338969007472 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 338969007473 active site 338969007474 catalytic site [active] 338969007475 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl19286 338969007476 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 338969007477 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 338969007478 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 338969007479 active site 338969007480 homodimer interface [polypeptide binding]; other site 338969007481 catalytic site [active] 338969007482 acceptor binding site [chemical binding]; other site 338969007483 glycogen branching enzyme; Provisional; Region: PRK12313 338969007484 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 338969007485 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 338969007486 active site 338969007487 catalytic site [active] 338969007488 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 338969007489 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 338969007490 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 338969007491 active site 338969007492 homotetramer interface [polypeptide binding]; other site 338969007493 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969007494 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; cl17220 338969007495 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 338969007496 RmuC family; Region: RmuC; pfam02646 338969007497 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 338969007498 putative substrate translocation pore; other site 338969007499 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969007500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969007501 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 338969007502 NAD(P) binding site [chemical binding]; other site 338969007503 active site 338969007504 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 338969007505 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 338969007506 ATP binding site [chemical binding]; other site 338969007507 Mg++ binding site [ion binding]; other site 338969007508 motif III; other site 338969007509 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 338969007510 nucleotide binding region [chemical binding]; other site 338969007511 ATP-binding site [chemical binding]; other site 338969007512 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 338969007513 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 338969007514 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338969007515 ABC transporter; Region: ABC_tran_2; pfam12848 338969007516 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338969007517 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 338969007518 Uncharacterized conserved protein [Function unknown]; Region: COG5495 338969007519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969007520 NAD(P) binding site [chemical binding]; other site 338969007521 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 338969007522 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 338969007523 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 338969007524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969007525 homodimer interface [polypeptide binding]; other site 338969007526 catalytic residue [active] 338969007527 excinuclease ABC subunit B; Provisional; Region: PRK05298 338969007528 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 338969007529 ATP binding site [chemical binding]; other site 338969007530 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 338969007531 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 338969007532 nucleotide binding region [chemical binding]; other site 338969007533 ATP-binding site [chemical binding]; other site 338969007534 Ultra-violet resistance protein B; Region: UvrB; pfam12344 338969007535 UvrB/uvrC motif; Region: UVR; pfam02151 338969007536 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 338969007537 Rrf2 family protein; Region: rrf2_super; TIGR00738 338969007538 cysteine desulfurase; Provisional; Region: PRK14012 338969007539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969007540 catalytic residue [active] 338969007541 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 338969007542 trimerization site [polypeptide binding]; other site 338969007543 active site 338969007544 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 338969007545 co-chaperone HscB; Provisional; Region: hscB; PRK03578 338969007546 DnaJ domain; Region: DnaJ; pfam00226 338969007547 HSP70 interaction site [polypeptide binding]; other site 338969007548 HSCB C-terminal oligomerization domain; Region: HSCB_C; pfam07743 338969007549 chaperone protein HscA; Provisional; Region: hscA; PRK05183 338969007550 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 338969007551 nucleotide binding site [chemical binding]; other site 338969007552 putative NEF/HSP70 interaction site [polypeptide binding]; other site 338969007553 SBD interface [polypeptide binding]; other site 338969007554 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 338969007555 catalytic loop [active] 338969007556 iron binding site [ion binding]; other site 338969007557 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 338969007558 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 338969007559 active site 338969007560 catalytic site [active] 338969007561 substrate binding site [chemical binding]; other site 338969007562 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 338969007563 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; cl19102 338969007564 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338969007565 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969007566 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; cl19102 338969007567 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 338969007568 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 338969007569 TPP-binding site [chemical binding]; other site 338969007570 putative dimer interface [polypeptide binding]; other site 338969007571 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 338969007572 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 338969007573 dimer interface [polypeptide binding]; other site 338969007574 PYR/PP interface [polypeptide binding]; other site 338969007575 TPP binding site [chemical binding]; other site 338969007576 substrate binding site [chemical binding]; other site 338969007577 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338969007578 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 338969007579 Prostaglandin dehydrogenases; Region: PGDH; cd05288 338969007580 NAD(P) binding site [chemical binding]; other site 338969007581 substrate binding site [chemical binding]; other site 338969007582 dimer interface [polypeptide binding]; other site 338969007583 Beta-lactamase; Region: Beta-lactamase; pfam00144 338969007584 PEP synthetase regulatory protein; Provisional; Region: PRK05339 338969007585 phosphoenolpyruvate synthase; Validated; Region: PRK06464 338969007586 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338969007587 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 338969007588 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 338969007589 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 338969007590 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 338969007591 Na binding site [ion binding]; other site 338969007592 Protein of unknown function (DUF2397); Region: DUF2397; cl19578 338969007593 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 338969007594 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 338969007595 generic binding surface I; other site 338969007596 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 338969007597 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 338969007598 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 338969007599 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 338969007600 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 338969007601 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 338969007602 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 338969007603 active site 338969007604 dimer interface [polypeptide binding]; other site 338969007605 effector binding site; other site 338969007606 Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); Region: Auto_anti-p27; cl00713 338969007607 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 338969007608 Ligand Binding Site [chemical binding]; other site 338969007609 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 338969007610 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 338969007611 Walker A/P-loop; other site 338969007612 ATP binding site [chemical binding]; other site 338969007613 Q-loop/lid; other site 338969007614 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 338969007615 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 338969007616 ABC transporter signature motif; other site 338969007617 Walker B; other site 338969007618 D-loop; other site 338969007619 H-loop/switch region; other site 338969007620 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 338969007621 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 338969007622 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 338969007623 nucleotide binding pocket [chemical binding]; other site 338969007624 K-X-D-G motif; other site 338969007625 catalytic site [active] 338969007626 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 338969007627 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 338969007628 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 338969007629 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 338969007630 DNA binding site [nucleotide binding] 338969007631 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 338969007632 Dimer interface [polypeptide binding]; other site 338969007633 BRCT sequence motif; other site 338969007634 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 338969007635 active site 338969007636 catalytic residues [active] 338969007637 metal binding site [ion binding]; metal-binding site 338969007638 DNA primase; Validated; Region: dnaG; PRK05667 338969007639 CHC2 zinc finger; Region: zf-CHC2; pfam01807 338969007640 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 338969007641 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 338969007642 active site 338969007643 metal binding site [ion binding]; metal-binding site 338969007644 interdomain interaction site; other site 338969007645 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 338969007646 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 338969007647 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 338969007648 NAD binding site [chemical binding]; other site 338969007649 homodimer interface [polypeptide binding]; other site 338969007650 homotetramer interface [polypeptide binding]; other site 338969007651 active site 338969007652 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 338969007653 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 338969007654 quinone interaction residues [chemical binding]; other site 338969007655 active site 338969007656 catalytic residues [active] 338969007657 FMN binding site [chemical binding]; other site 338969007658 substrate binding site [chemical binding]; other site 338969007659 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 338969007660 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338969007661 active site 338969007662 dimer interface [polypeptide binding]; other site 338969007663 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338969007664 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 338969007665 catalytic residues [active] 338969007666 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 338969007667 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 338969007668 active site 338969007669 Zn binding site [ion binding]; other site 338969007670 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 338969007671 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 338969007672 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 338969007673 homodimer interface [polypeptide binding]; other site 338969007674 NADP binding site [chemical binding]; other site 338969007675 substrate binding site [chemical binding]; other site 338969007676 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 338969007677 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 338969007678 active site 338969007679 phosphorylation site [posttranslational modification] 338969007680 intermolecular recognition site; other site 338969007681 dimerization interface [polypeptide binding]; other site 338969007682 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 338969007683 DNA binding residues [nucleotide binding] 338969007684 dimerization interface [polypeptide binding]; other site 338969007685 PAS domain S-box; Region: sensory_box; TIGR00229 338969007686 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969007687 putative active site [active] 338969007688 heme pocket [chemical binding]; other site 338969007689 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338969007690 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 338969007691 dimer interface [polypeptide binding]; other site 338969007692 phosphorylation site [posttranslational modification] 338969007693 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 338969007694 ATP binding site [chemical binding]; other site 338969007695 Mg2+ binding site [ion binding]; other site 338969007696 G-X-G motif; other site 338969007697 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 338969007698 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 338969007699 dimer interface [polypeptide binding]; other site 338969007700 TPP-binding site [chemical binding]; other site 338969007701 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 338969007702 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 338969007703 E3 interaction surface; other site 338969007704 lipoyl attachment site [posttranslational modification]; other site 338969007705 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 338969007706 E3 interaction surface; other site 338969007707 lipoyl attachment site [posttranslational modification]; other site 338969007708 e3 binding domain; Region: E3_binding; pfam02817 338969007709 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 338969007710 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 338969007711 E3 interaction surface; other site 338969007712 lipoyl attachment site [posttranslational modification]; other site 338969007713 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 338969007714 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 338969007715 SpoVR family protein; Provisional; Region: PRK11767 338969007716 hypothetical protein; Provisional; Region: PRK05325 338969007717 PrkA family serine protein kinase; Provisional; Region: PRK15455 338969007718 PrkA AAA domain; Region: AAA_PrkA; pfam08298 338969007719 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 338969007720 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 338969007721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969007722 metal binding site [ion binding]; metal-binding site 338969007723 active site 338969007724 I-site; other site 338969007725 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969007726 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 338969007727 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 338969007728 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 338969007729 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969007730 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969007731 Reductase C-terminal; Region: Reductase_C; pfam14759 338969007732 BON domain; Region: BON; pfam04972 338969007733 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969007734 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338969007735 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 338969007736 dimerization interface [polypeptide binding]; other site 338969007737 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969007738 dimer interface [polypeptide binding]; other site 338969007739 putative CheW interface [polypeptide binding]; other site 338969007740 CHRD domain; Region: CHRD; pfam07452 338969007741 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 338969007742 non-specific DNA binding site [nucleotide binding]; other site 338969007743 salt bridge; other site 338969007744 sequence-specific DNA binding site [nucleotide binding]; other site 338969007745 Predicted ATPase [General function prediction only]; Region: COG3899 338969007746 AAA ATPase domain; Region: AAA_16; pfam13191 338969007747 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 338969007748 binding surface 338969007749 TPR motif; other site 338969007750 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338969007751 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338969007752 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 338969007753 binding surface 338969007754 TPR motif; other site 338969007755 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 338969007756 heme-binding site [chemical binding]; other site 338969007757 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 338969007758 S-adenosylmethionine binding site [chemical binding]; other site 338969007759 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 338969007760 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 338969007761 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 338969007762 peroxiredoxin; Region: AhpC; TIGR03137 338969007763 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 338969007764 dimer interface [polypeptide binding]; other site 338969007765 decamer (pentamer of dimers) interface [polypeptide binding]; other site 338969007766 catalytic triad [active] 338969007767 peroxidatic and resolving cysteines [active] 338969007768 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 338969007769 YqjK-like protein; Region: YqjK; pfam13997 338969007770 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 338969007771 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 338969007772 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969007773 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 338969007774 acyl-activating enzyme (AAE) consensus motif; other site 338969007775 active site 338969007776 AMP binding site [chemical binding]; other site 338969007777 CoA binding site [chemical binding]; other site 338969007778 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 338969007779 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 338969007780 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969007781 active site 338969007782 thymidine phosphorylase; Provisional; Region: PRK04350 338969007783 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 338969007784 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 338969007785 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 338969007786 elongation factor P; Validated; Region: PRK00529 338969007787 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 338969007788 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 338969007789 RNA binding site [nucleotide binding]; other site 338969007790 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 338969007791 RNA binding site [nucleotide binding]; other site 338969007792 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 338969007793 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 338969007794 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 338969007795 GIY-YIG motif/motif A; other site 338969007796 active site 338969007797 catalytic site [active] 338969007798 putative DNA binding site [nucleotide binding]; other site 338969007799 metal binding site [ion binding]; metal-binding site 338969007800 UvrB/uvrC motif; Region: UVR; pfam02151 338969007801 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 338969007802 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 338969007803 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 338969007804 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969007805 EamA-like transporter family; Region: EamA; pfam00892 338969007806 EamA-like transporter family; Region: EamA; pfam00892 338969007807 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 338969007808 histone-like DNA-binding protein HU; Region: HU; cd13831 338969007809 dimer interface [polypeptide binding]; other site 338969007810 DNA binding site [nucleotide binding] 338969007811 periplasmic folding chaperone; Provisional; Region: PRK10788 338969007812 SurA N-terminal domain; Region: SurA_N_3; cl07813 338969007813 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 338969007814 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338969007815 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 338969007816 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 338969007817 catalytic residues [active] 338969007818 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 338969007819 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 338969007820 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 338969007821 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 338969007822 dimerization interface [polypeptide binding]; other site 338969007823 thymidylate kinase; Validated; Region: tmk; PRK00698 338969007824 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 338969007825 TMP-binding site; other site 338969007826 ATP-binding site [chemical binding]; other site 338969007827 DNA polymerase III subunit delta'; Validated; Region: PRK06964 338969007828 DNA polymerase III subunit delta'; Validated; Region: PRK08485 338969007829 PilZ domain; Region: PilZ; cl01260 338969007830 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 338969007831 active site 338969007832 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 338969007833 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 338969007834 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 338969007835 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 338969007836 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 338969007837 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 338969007838 active site 338969007839 DNA binding site [nucleotide binding] 338969007840 Int/Topo IB signature motif; other site 338969007841 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 338969007842 active site 338969007843 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 338969007844 phosphorylation site [posttranslational modification] 338969007845 intermolecular recognition site; other site 338969007846 dimerization interface [polypeptide binding]; other site 338969007847 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 338969007848 active site 338969007849 phosphorylation site [posttranslational modification] 338969007850 intermolecular recognition site; other site 338969007851 dimerization interface [polypeptide binding]; other site 338969007852 PAS domain S-box; Region: sensory_box; TIGR00229 338969007853 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969007854 putative active site [active] 338969007855 heme pocket [chemical binding]; other site 338969007856 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969007857 metal binding site [ion binding]; metal-binding site 338969007858 active site 338969007859 I-site; other site 338969007860 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969007861 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969007862 HAMP domain; Region: HAMP; pfam00672 338969007863 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 338969007864 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 338969007865 dimer interface [polypeptide binding]; other site 338969007866 phosphorylation site [posttranslational modification] 338969007867 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 338969007868 ATP binding site [chemical binding]; other site 338969007869 Mg2+ binding site [ion binding]; other site 338969007870 G-X-G motif; other site 338969007871 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 338969007872 active site 338969007873 phosphorylation site [posttranslational modification] 338969007874 intermolecular recognition site; other site 338969007875 dimerization interface [polypeptide binding]; other site 338969007876 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 338969007877 active site 338969007878 phosphorylation site [posttranslational modification] 338969007879 intermolecular recognition site; other site 338969007880 dimerization interface [polypeptide binding]; other site 338969007881 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 338969007882 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 338969007883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969007884 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 338969007885 NAD(P) binding site [chemical binding]; other site 338969007886 active site 338969007887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 338969007888 Transposase; Region: DEDD_Tnp_IS110; pfam01548 338969007889 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 338969007890 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 338969007891 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 338969007892 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 338969007893 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 338969007894 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 338969007895 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969007896 active site 338969007897 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 338969007898 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 338969007899 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969007900 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 338969007901 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; cl19102 338969007902 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338969007903 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969007904 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 338969007905 active site 338969007906 phosphorylation site [posttranslational modification] 338969007907 intermolecular recognition site; other site 338969007908 dimerization interface [polypeptide binding]; other site 338969007909 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 338969007910 DNA binding site [nucleotide binding] 338969007911 PAS fold; Region: PAS_7; pfam12860 338969007912 Herpes virus tegument protein U30; Region: Herpes_U30; pfam04523 338969007913 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969007914 PAS domain; Region: PAS_9; pfam13426 338969007915 putative active site [active] 338969007916 heme pocket [chemical binding]; other site 338969007917 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 338969007918 dimer interface [polypeptide binding]; other site 338969007919 phosphorylation site [posttranslational modification] 338969007920 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 338969007921 ATP binding site [chemical binding]; other site 338969007922 G-X-G motif; other site 338969007923 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 338969007924 active site 338969007925 phosphorylation site [posttranslational modification] 338969007926 intermolecular recognition site; other site 338969007927 dimerization interface [polypeptide binding]; other site 338969007928 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 338969007929 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 338969007930 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969007931 beta-ketothiolase; Provisional; Region: PRK09051 338969007932 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969007933 dimer interface [polypeptide binding]; other site 338969007934 active site 338969007935 Transposase domain (DUF772); Region: DUF772; pfam05598 338969007936 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338969007937 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 338969007938 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 338969007939 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 338969007940 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 338969007941 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 338969007942 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 338969007943 DNA binding residues [nucleotide binding] 338969007944 dimer interface [polypeptide binding]; other site 338969007945 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 338969007946 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 338969007947 non-specific DNA binding site [nucleotide binding]; other site 338969007948 salt bridge; other site 338969007949 sequence-specific DNA binding site [nucleotide binding]; other site 338969007950 Cupin domain; Region: Cupin_2; pfam07883 338969007951 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 338969007952 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 338969007953 substrate binding site [chemical binding]; other site 338969007954 oxyanion hole (OAH) forming residues; other site 338969007955 trimer interface [polypeptide binding]; other site 338969007956 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 338969007957 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 338969007958 acyl-activating enzyme (AAE) consensus motif; other site 338969007959 putative AMP binding site [chemical binding]; other site 338969007960 putative active site [active] 338969007961 putative CoA binding site [chemical binding]; other site 338969007962 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 338969007963 cyclase homology domain; Region: CHD; cd07302 338969007964 nucleotidyl binding site; other site 338969007965 metal binding site [ion binding]; metal-binding site 338969007966 dimer interface [polypeptide binding]; other site 338969007967 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 338969007968 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 338969007969 phosphopeptide binding site; other site 338969007970 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 338969007971 dimer interface [polypeptide binding]; other site 338969007972 catalytic triad [active] 338969007973 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 338969007974 nucleoside/Zn binding site; other site 338969007975 dimer interface [polypeptide binding]; other site 338969007976 catalytic motif [active] 338969007977 haloalkane dehalogenase; Provisional; Region: PRK00870 338969007978 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969007979 GMP synthase; Reviewed; Region: guaA; PRK00074 338969007980 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 338969007981 AMP/PPi binding site [chemical binding]; other site 338969007982 candidate oxyanion hole; other site 338969007983 catalytic triad [active] 338969007984 potential glutamine specificity residues [chemical binding]; other site 338969007985 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 338969007986 ATP Binding subdomain [chemical binding]; other site 338969007987 Ligand Binding sites [chemical binding]; other site 338969007988 Dimerization subdomain; other site 338969007989 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 338969007990 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 338969007991 active site 338969007992 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 338969007993 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338969007994 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 338969007995 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 338969007996 putative coenzyme Q binding site [chemical binding]; other site 338969007997 biotin synthase; Region: bioB; TIGR00433 338969007998 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 338969007999 FeS/SAM binding site; other site 338969008000 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 338969008001 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969008002 Zn2+ binding site [ion binding]; other site 338969008003 Mg2+ binding site [ion binding]; other site 338969008004 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; cl18945 338969008005 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969008006 catalytic residue [active] 338969008007 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969008008 active site 338969008009 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 338969008010 GDP-binding site [chemical binding]; other site 338969008011 ACT binding site; other site 338969008012 IMP binding site; other site 338969008013 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 338969008014 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 338969008015 dimer interface [polypeptide binding]; other site 338969008016 motif 1; other site 338969008017 active site 338969008018 motif 2; other site 338969008019 motif 3; other site 338969008020 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 338969008021 HflC protein; Region: hflC; TIGR01932 338969008022 High frequency of lysogenization C (HflC) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflC; cd03405 338969008023 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 338969008024 High frequency of lysogenization K (HflK) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflK; cd03404 338969008025 HflK protein; Region: hflK; TIGR01933 338969008026 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 338969008027 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 338969008028 HflX GTPase family; Region: HflX; cd01878 338969008029 G1 box; other site 338969008030 GTP/Mg2+ binding site [chemical binding]; other site 338969008031 Switch I region; other site 338969008032 G2 box; other site 338969008033 G3 box; other site 338969008034 Switch II region; other site 338969008035 G4 box; other site 338969008036 G5 box; other site 338969008037 bacterial Hfq-like; Region: Hfq; cd01716 338969008038 hexamer interface [polypeptide binding]; other site 338969008039 Sm1 motif; other site 338969008040 RNA binding site [nucleotide binding]; other site 338969008041 Sm2 motif; other site 338969008042 GTP-binding protein Der; Reviewed; Region: PRK00093 338969008043 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 338969008044 G1 box; other site 338969008045 GTP/Mg2+ binding site [chemical binding]; other site 338969008046 Switch I region; other site 338969008047 G2 box; other site 338969008048 Switch II region; other site 338969008049 G3 box; other site 338969008050 G4 box; other site 338969008051 G5 box; other site 338969008052 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 338969008053 G1 box; other site 338969008054 GTP/Mg2+ binding site [chemical binding]; other site 338969008055 Switch I region; other site 338969008056 G2 box; other site 338969008057 G3 box; other site 338969008058 Switch II region; other site 338969008059 G4 box; other site 338969008060 G5 box; other site 338969008061 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 338969008062 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 338969008063 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 338969008064 Trp docking motif [polypeptide binding]; other site 338969008065 active site 338969008066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 338969008067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 338969008068 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 338969008069 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 338969008070 dimer interface [polypeptide binding]; other site 338969008071 motif 1; other site 338969008072 active site 338969008073 motif 2; other site 338969008074 motif 3; other site 338969008075 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 338969008076 anticodon binding site; other site 338969008077 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 338969008078 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 338969008079 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 338969008080 Helix-turn-helix domain; Region: HTH_25; pfam13413 338969008081 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 338969008082 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 338969008083 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 338969008084 binding surface 338969008085 TPR motif; other site 338969008086 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 338969008087 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 338969008088 FeS/SAM binding site; other site 338969008089 Nucleoside diphosphate kinase; Region: NDK; pfam00334 338969008090 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 338969008091 active site 338969008092 multimer interface [polypeptide binding]; other site 338969008093 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 338969008094 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 338969008095 RNA binding surface [nucleotide binding]; other site 338969008096 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 338969008097 probable active site [active] 338969008098 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 338969008099 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 338969008100 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 338969008101 RNA binding surface [nucleotide binding]; other site 338969008102 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338969008103 active site 338969008104 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 338969008105 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 338969008106 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 338969008107 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 338969008108 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; cd00143 338969008109 active site 338969008110 Predicted ATPase [General function prediction only]; Region: COG1485 338969008111 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 338969008112 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969008113 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969008114 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 338969008115 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 338969008116 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 338969008117 E3 interaction surface; other site 338969008118 lipoyl attachment site [posttranslational modification]; other site 338969008119 e3 binding domain; Region: E3_binding; pfam02817 338969008120 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 338969008121 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 338969008122 Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or...; Region: DSPc; cl00053 338969008123 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 338969008124 TPP-binding site [chemical binding]; other site 338969008125 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 338969008126 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 338969008127 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969008128 acyl-activating enzyme (AAE) consensus motif; other site 338969008129 AMP binding site [chemical binding]; other site 338969008130 active site 338969008131 CoA binding site [chemical binding]; other site 338969008132 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 338969008133 catalytic triad [active] 338969008134 conserved cis-peptide bond; other site 338969008135 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 338969008136 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 338969008137 substrate binding pocket [chemical binding]; other site 338969008138 membrane-bound complex binding site; other site 338969008139 hinge residues; other site 338969008140 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 338969008141 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 338969008142 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 338969008143 putative PBP binding loops; other site 338969008144 dimer interface [polypeptide binding]; other site 338969008145 ABC-ATPase subunit interface; other site 338969008146 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969008147 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 338969008148 dimer interface [polypeptide binding]; other site 338969008149 conserved gate region; other site 338969008150 putative PBP binding loops; other site 338969008151 ABC-ATPase subunit interface; other site 338969008152 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969008153 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969008154 Walker A/P-loop; other site 338969008155 ATP binding site [chemical binding]; other site 338969008156 Q-loop/lid; other site 338969008157 ABC transporter signature motif; other site 338969008158 Walker B; other site 338969008159 D-loop; other site 338969008160 H-loop/switch region; other site 338969008161 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 338969008162 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 338969008163 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 338969008164 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 338969008165 MOFRL family; Region: MOFRL; pfam05161 338969008166 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 338969008167 Fatty acyltransferase-like subfamily of the 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: fatty_acyltransferase_like; cd01846 338969008168 active site 338969008169 catalytic triad [active] 338969008170 oxyanion hole [active] 338969008171 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 338969008172 FAD binding domain; Region: FAD_binding_4; pfam01565 338969008173 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 338969008174 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 338969008175 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969008176 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 338969008177 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 338969008178 putative N- and C-terminal domain interface [polypeptide binding]; other site 338969008179 putative active site [active] 338969008180 MgATP binding site [chemical binding]; other site 338969008181 catalytic site [active] 338969008182 metal binding site [ion binding]; metal-binding site 338969008183 putative carbohydrate binding site [chemical binding]; other site 338969008184 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 338969008185 FAD binding domain; Region: FAD_binding_4; pfam01565 338969008186 Berberine and berberine like; Region: BBE; pfam08031 338969008187 PAS fold; Region: PAS_7; pfam12860 338969008188 PAS domain; Region: PAS_9; pfam13426 338969008189 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969008190 putative active site [active] 338969008191 heme pocket [chemical binding]; other site 338969008192 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969008193 metal binding site [ion binding]; metal-binding site 338969008194 active site 338969008195 I-site; other site 338969008196 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 338969008197 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 338969008198 putative active site [active] 338969008199 metal binding site [ion binding]; metal-binding site 338969008200 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 338969008201 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 338969008202 ferredoxin; Provisional; Region: PRK08764 338969008203 Putative Fe-S cluster; Region: FeS; cl17515 338969008204 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; cl19102 338969008205 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 338969008206 dimerization interface [polypeptide binding]; other site 338969008207 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969008208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969008209 dimer interface [polypeptide binding]; other site 338969008210 putative CheW interface [polypeptide binding]; other site 338969008211 BON domain; Region: BON; pfam04972 338969008212 2-isopropylmalate synthase; Validated; Region: PRK00915 338969008213 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 338969008214 active site 338969008215 catalytic residues [active] 338969008216 metal binding site [ion binding]; metal-binding site 338969008217 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 338969008218 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 338969008219 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 338969008220 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 338969008221 Transcriptional regulator [Transcription]; Region: IclR; COG1414 338969008222 Bacterial transcriptional regulator; Region: IclR; pfam01614 338969008223 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 338969008224 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 338969008225 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 338969008226 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 338969008227 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969008228 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969008229 dimer interface [polypeptide binding]; other site 338969008230 putative CheW interface [polypeptide binding]; other site 338969008231 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 338969008232 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 338969008233 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 338969008234 active site 338969008235 substrate binding site [chemical binding]; other site 338969008236 FMN binding site [chemical binding]; other site 338969008237 putative catalytic residues [active] 338969008238 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 338969008239 CoA binding domain; Region: CoA_binding_2; pfam13380 338969008240 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 338969008241 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 338969008242 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 338969008243 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969008244 Coenzyme A binding pocket [chemical binding]; other site 338969008245 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 338969008246 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 338969008247 active site 338969008248 DNA binding site [nucleotide binding] 338969008249 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 338969008250 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 338969008251 dimerization interface [polypeptide binding]; other site 338969008252 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969008253 dimer interface [polypeptide binding]; other site 338969008254 putative CheW interface [polypeptide binding]; other site 338969008255 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 338969008256 CheB methylesterase; Region: CheB_methylest; pfam01339 338969008257 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338969008258 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 338969008259 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 338969008260 S-adenosylmethionine binding site [chemical binding]; other site 338969008261 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 338969008262 PAS domain; Region: PAS_10; pfam13596 338969008263 PAS domain S-box; Region: sensory_box; TIGR00229 338969008264 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969008265 putative active site [active] 338969008266 heme pocket [chemical binding]; other site 338969008267 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969008268 PAS domain; Region: PAS_9; pfam13426 338969008269 putative active site [active] 338969008270 heme pocket [chemical binding]; other site 338969008271 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 338969008272 dimer interface [polypeptide binding]; other site 338969008273 phosphorylation site [posttranslational modification] 338969008274 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 338969008275 ATP binding site [chemical binding]; other site 338969008276 Mg2+ binding site [ion binding]; other site 338969008277 G-X-G motif; other site 338969008278 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 338969008279 active site 338969008280 phosphorylation site [posttranslational modification] 338969008281 intermolecular recognition site; other site 338969008282 dimerization interface [polypeptide binding]; other site 338969008283 CheB methylesterase; Region: CheB_methylest; pfam01339 338969008284 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 338969008285 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 338969008286 active site 338969008287 metal binding site [ion binding]; metal-binding site 338969008288 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 338969008289 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 338969008290 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 338969008291 dinuclear metal binding motif [ion binding]; other site 338969008292 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 338969008293 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 338969008294 Cytochrome oxidase subunit II; Region: Cyto_ox_2; cl12219 338969008295 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 338969008296 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 338969008297 fumarate hydratase; Reviewed; Region: fumC; PRK00485 338969008298 Class II fumarases; Region: Fumarase_classII; cd01362 338969008299 active site 338969008300 tetramer interface [polypeptide binding]; other site 338969008301 aconitate hydratase; Validated; Region: PRK09277 338969008302 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 338969008303 substrate binding site [chemical binding]; other site 338969008304 ligand binding site [chemical binding]; other site 338969008305 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 338969008306 substrate binding site [chemical binding]; other site 338969008307 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 338969008308 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 338969008309 Nitrile reductase, 7-cyano-7-deazaguanine-reductase N-term; Region: QueF_N; pfam14819 338969008310 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 338969008311 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969008312 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969008313 TAP-like protein; Region: Abhydrolase_4; pfam08386 338969008314 hypothetical protein; Validated; Region: PRK02101 338969008315 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 338969008316 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338969008317 Cysteine-rich domain; Region: CCG; pfam02754 338969008318 Rubrerythrin [Energy production and conversion]; Region: COG1592 338969008319 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 338969008320 binuclear metal center [ion binding]; other site 338969008321 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 338969008322 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 338969008323 active site 338969008324 HIGH motif; other site 338969008325 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 338969008326 KMSKS motif; other site 338969008327 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 338969008328 tRNA binding surface [nucleotide binding]; other site 338969008329 anticodon binding site; other site 338969008330 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 338969008331 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 338969008332 CPxP motif; other site 338969008333 cysteine synthase; Region: PLN02565 338969008334 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 338969008335 dimer interface [polypeptide binding]; other site 338969008336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969008337 catalytic residue [active] 338969008338 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 338969008339 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 338969008340 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 338969008341 active site 338969008342 catalytic residue [active] 338969008343 dimer interface [polypeptide binding]; other site 338969008344 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 338969008345 active site 338969008346 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 338969008347 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969008348 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 338969008349 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 338969008350 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 338969008351 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969008352 active site 338969008353 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 338969008354 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 338969008355 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969008356 dimer interface [polypeptide binding]; other site 338969008357 active site 338969008358 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 338969008359 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 338969008360 substrate binding site [chemical binding]; other site 338969008361 oxyanion hole (OAH) forming residues; other site 338969008362 trimer interface [polypeptide binding]; other site 338969008363 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 338969008364 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969008365 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969008366 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969008367 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969008368 Walker A/P-loop; other site 338969008369 ATP binding site [chemical binding]; other site 338969008370 Q-loop/lid; other site 338969008371 ABC transporter signature motif; other site 338969008372 Walker B; other site 338969008373 D-loop; other site 338969008374 H-loop/switch region; other site 338969008375 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969008376 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969008377 Walker A/P-loop; other site 338969008378 ATP binding site [chemical binding]; other site 338969008379 Q-loop/lid; other site 338969008380 ABC transporter signature motif; other site 338969008381 Walker B; other site 338969008382 D-loop; other site 338969008383 H-loop/switch region; other site 338969008384 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969008385 TM-ABC transporter signature motif; other site 338969008386 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969008387 TM-ABC transporter signature motif; other site 338969008388 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 338969008389 putative ligand binding site [chemical binding]; other site 338969008390 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 338969008391 putative ligand binding site [chemical binding]; other site 338969008392 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 338969008393 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 338969008394 dimer interface [polypeptide binding]; other site 338969008395 acyl-activating enzyme (AAE) consensus motif; other site 338969008396 putative active site [active] 338969008397 AMP binding site [chemical binding]; other site 338969008398 putative CoA binding site [chemical binding]; other site 338969008399 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969008400 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 338969008401 ligand binding site [chemical binding]; other site 338969008402 flexible hinge region; other site 338969008403 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969008404 hypothetical protein; Validated; Region: PRK00029 338969008405 methionine sulfoxide reductase B; Provisional; Region: PRK00222 338969008406 intracellular septation protein A; Reviewed; Region: PRK00259 338969008407 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 338969008408 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 338969008409 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 338969008410 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969008411 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 338969008412 dimer interface [polypeptide binding]; other site 338969008413 phosphorylation site [posttranslational modification] 338969008414 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 338969008415 ATP binding site [chemical binding]; other site 338969008416 Mg2+ binding site [ion binding]; other site 338969008417 G-X-G motif; other site 338969008418 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 338969008419 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 338969008420 active site 338969008421 phosphorylation site [posttranslational modification] 338969008422 intermolecular recognition site; other site 338969008423 dimerization interface [polypeptide binding]; other site 338969008424 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; cl17355 338969008425 DNA binding site [nucleotide binding] 338969008426 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 338969008427 malate dehydrogenase; Provisional; Region: PRK05442 338969008428 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 338969008429 NAD(P) binding site [chemical binding]; other site 338969008430 dimer interface [polypeptide binding]; other site 338969008431 malate binding site [chemical binding]; other site 338969008432 Serine hydrolase; Region: Ser_hydrolase; pfam06821 338969008433 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969008434 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 338969008435 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 338969008436 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 338969008437 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 338969008438 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 338969008439 citrate lyase subunit gamma; Provisional; Region: PRK13253 338969008440 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 338969008441 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 338969008442 putative active site [active] 338969008443 (T/H)XGH motif; other site 338969008444 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 338969008445 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 338969008446 anion transporter; Region: dass; TIGR00785 338969008447 transmembrane helices; other site 338969008448 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 338969008449 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 338969008450 Collagenase; Region: DUF3656; pfam12392 338969008451 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 338969008452 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 338969008453 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969008454 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 338969008455 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 338969008456 S-adenosylmethionine binding site [chemical binding]; other site 338969008457 FtsH Extracellular; Region: FtsH_ext; pfam06480 338969008458 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 338969008459 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 338969008460 Walker A motif; other site 338969008461 ATP binding site [chemical binding]; other site 338969008462 Walker B motif; other site 338969008463 arginine finger; other site 338969008464 Peptidase family M41; Region: Peptidase_M41; pfam01434 338969008465 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 338969008466 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 338969008467 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 338969008468 dimerization interface [polypeptide binding]; other site 338969008469 ATP binding site [chemical binding]; other site 338969008470 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 338969008471 dimerization interface [polypeptide binding]; other site 338969008472 ATP binding site [chemical binding]; other site 338969008473 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 338969008474 putative active site [active] 338969008475 catalytic triad [active] 338969008476 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 338969008477 active site 338969008478 PII uridylyl-transferase; Provisional; Region: PRK03059 338969008479 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338969008480 metal binding triad; other site 338969008481 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 338969008482 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969008483 Zn2+ binding site [ion binding]; other site 338969008484 Mg2+ binding site [ion binding]; other site 338969008485 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 338969008486 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 338969008487 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; cl00125 338969008488 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 338969008489 active site residue [active] 338969008490 AAA domain; Region: AAA_17; pfam13207 338969008491 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 338969008492 active site 338969008493 catalytic triad [active] 338969008494 oxyanion hole [active] 338969008495 switch loop; other site 338969008496 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 338969008497 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338969008498 Walker A/P-loop; other site 338969008499 ATP binding site [chemical binding]; other site 338969008500 Q-loop/lid; other site 338969008501 ABC transporter signature motif; other site 338969008502 Walker B; other site 338969008503 D-loop; other site 338969008504 H-loop/switch region; other site 338969008505 mechanosensitive channel MscS; Provisional; Region: PRK10334 338969008506 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338969008507 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 338969008508 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 338969008509 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 338969008510 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 338969008511 helicase-primase primase subunit; Provisional; Region: PHA03140 338969008512 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 338969008513 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 338969008514 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338969008515 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 338969008516 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 338969008517 short chain dehydrogenase; Region: adh_short; pfam00106 338969008518 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 338969008519 NADP binding site [chemical binding]; other site 338969008520 homodimer interface [polypeptide binding]; other site 338969008521 active site 338969008522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969008523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969008524 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 338969008525 putative effector binding pocket; other site 338969008526 dimerization interface [polypeptide binding]; other site 338969008527 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 338969008528 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 338969008529 putative NAD(P) binding site [chemical binding]; other site 338969008530 putative substrate binding site [chemical binding]; other site 338969008531 catalytic Zn binding site [ion binding]; other site 338969008532 structural Zn binding site [ion binding]; other site 338969008533 dimer interface [polypeptide binding]; other site 338969008534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969008535 NAD(P) binding site [chemical binding]; other site 338969008536 active site 338969008537 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 338969008538 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 338969008539 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 338969008540 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969008541 catalytic site [active] 338969008542 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 338969008543 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969008544 putative substrate translocation pore; other site 338969008545 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 338969008546 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 338969008547 active site 338969008548 catalytic tetrad [active] 338969008549 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 338969008550 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 338969008551 active site 338969008552 catalytic tetrad [active] 338969008553 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 338969008554 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 338969008555 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 338969008556 Chromate transporter; Region: Chromate_transp; pfam02417 338969008557 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; cl00125 338969008558 active site residue [active] 338969008559 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 338969008560 Protein of unknown function (DUF466); Region: DUF466; pfam04328 338969008561 carbon starvation protein A; Provisional; Region: PRK15015 338969008562 Carbon starvation protein CstA; Region: CstA; pfam02554 338969008563 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 338969008564 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 338969008565 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 338969008566 active site 338969008567 phosphorylation site [posttranslational modification] 338969008568 intermolecular recognition site; other site 338969008569 dimerization interface [polypeptide binding]; other site 338969008570 LytTr DNA-binding domain; Region: LytTR; smart00850 338969008571 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 338969008572 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 338969008573 GAF domain; Region: GAF; pfam01590 338969008574 Histidine kinase; Region: His_kinase; pfam06580 338969008575 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 338969008576 ATP binding site [chemical binding]; other site 338969008577 Mg2+ binding site [ion binding]; other site 338969008578 G-X-G motif; other site 338969008579 KTSC domain; Region: KTSC; pfam13619 338969008580 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338969008581 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 338969008582 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 338969008583 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 338969008584 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 338969008585 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 338969008586 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 338969008587 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 338969008588 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 338969008589 Active Sites [active] 338969008590 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 338969008591 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 338969008592 Active Sites [active] 338969008593 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 338969008594 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 338969008595 G1 box; other site 338969008596 GTP/Mg2+ binding site [chemical binding]; other site 338969008597 G2 box; other site 338969008598 Switch I region; other site 338969008599 G3 box; other site 338969008600 Switch II region; other site 338969008601 G4 box; other site 338969008602 G5 box; other site 338969008603 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 338969008604 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 338969008605 Ferredoxin [Energy production and conversion]; Region: COG1146 338969008606 4Fe-4S binding domain; Region: Fer4; pfam00037 338969008607 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 338969008608 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 338969008609 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969008610 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969008611 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 338969008612 Na binding site [ion binding]; other site 338969008613 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 338969008614 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 338969008615 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969008616 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 338969008617 thiS-thiF/thiG interaction site; other site 338969008618 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 338969008619 ThiS interaction site; other site 338969008620 putative active site [active] 338969008621 tetramer interface [polypeptide binding]; other site 338969008622 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 338969008623 thiamine phosphate binding site [chemical binding]; other site 338969008624 active site 338969008625 pyrophosphate binding site [ion binding]; other site 338969008626 Cytochrome c; Region: Cytochrom_C; cl11414 338969008627 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 338969008628 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 338969008629 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 338969008630 dimer interface [polypeptide binding]; other site 338969008631 substrate binding site [chemical binding]; other site 338969008632 ATP binding site [chemical binding]; other site 338969008633 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 338969008634 thiamine phosphate binding site [chemical binding]; other site 338969008635 active site 338969008636 pyrophosphate binding site [ion binding]; other site 338969008637 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 338969008638 substrate binding site [chemical binding]; other site 338969008639 multimerization interface [polypeptide binding]; other site 338969008640 ATP binding site [chemical binding]; other site 338969008641 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 338969008642 Uncharacterized conserved protein [Function unknown]; Region: COG2308 338969008643 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 338969008644 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 338969008645 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969008646 catalytic residue [active] 338969008647 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 338969008648 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 338969008649 Competence protein; Region: Competence; pfam03772 338969008650 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338969008651 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 338969008652 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 338969008653 binding surface 338969008654 TPR motif; other site 338969008655 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; cl19870 338969008656 hypothetical protein; Provisional; Region: PRK05858 338969008657 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338969008658 PYR/PP interface [polypeptide binding]; other site 338969008659 dimer interface [polypeptide binding]; other site 338969008660 TPP binding site [chemical binding]; other site 338969008661 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338969008662 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 338969008663 TPP-binding site; other site 338969008664 dimer interface [polypeptide binding]; other site 338969008665 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 338969008666 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 338969008667 acyl-activating enzyme (AAE) consensus motif; other site 338969008668 putative AMP binding site [chemical binding]; other site 338969008669 putative active site [active] 338969008670 putative CoA binding site [chemical binding]; other site 338969008671 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 338969008672 diguanylate cyclase; Provisional; Region: PRK09894 338969008673 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969008674 putative active site [active] 338969008675 heme pocket [chemical binding]; other site 338969008676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969008677 metal binding site [ion binding]; metal-binding site 338969008678 active site 338969008679 I-site; other site 338969008680 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969008681 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969008682 dimer interface [polypeptide binding]; other site 338969008683 putative CheW interface [polypeptide binding]; other site 338969008684 HDOD domain; Region: HDOD; pfam08668 338969008685 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 338969008686 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 338969008687 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 338969008688 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 338969008689 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 338969008690 RNA binding site [nucleotide binding]; other site 338969008691 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 338969008692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969008693 metal binding site [ion binding]; metal-binding site 338969008694 active site 338969008695 I-site; other site 338969008696 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969008697 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969008698 Zn2+ binding site [ion binding]; other site 338969008699 Mg2+ binding site [ion binding]; other site 338969008700 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969008701 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 338969008702 dimer interface [polypeptide binding]; other site 338969008703 phosphorylation site [posttranslational modification] 338969008704 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 338969008705 ATP binding site [chemical binding]; other site 338969008706 Mg2+ binding site [ion binding]; other site 338969008707 G-X-G motif; other site 338969008708 response regulator PleD; Reviewed; Region: pleD; PRK09581 338969008709 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 338969008710 active site 338969008711 phosphorylation site [posttranslational modification] 338969008712 intermolecular recognition site; other site 338969008713 dimerization interface [polypeptide binding]; other site 338969008714 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969008715 putative active site [active] 338969008716 heme pocket [chemical binding]; other site 338969008717 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969008718 metal binding site [ion binding]; metal-binding site 338969008719 active site 338969008720 I-site; other site 338969008721 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969008722 hypothetical protein; Provisional; Region: PRK06194 338969008723 classical (c) SDRs; Region: SDR_c; cd05233 338969008724 NAD(P) binding site [chemical binding]; other site 338969008725 active site 338969008726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969008727 Coenzyme A binding pocket [chemical binding]; other site 338969008728 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 338969008729 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 338969008730 C-terminal domain interface [polypeptide binding]; other site 338969008731 GSH binding site (G-site) [chemical binding]; other site 338969008732 dimer interface [polypeptide binding]; other site 338969008733 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 338969008734 N-terminal domain interface [polypeptide binding]; other site 338969008735 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 338969008736 Prostaglandin dehydrogenases; Region: PGDH; cd05288 338969008737 NAD(P) binding site [chemical binding]; other site 338969008738 substrate binding site [chemical binding]; other site 338969008739 dimer interface [polypeptide binding]; other site 338969008740 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 338969008741 CoenzymeA binding site [chemical binding]; other site 338969008742 subunit interaction site [polypeptide binding]; other site 338969008743 PHB binding site; other site 338969008744 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 338969008745 classical (c) SDRs; Region: SDR_c; cd05233 338969008746 NAD(P) binding site [chemical binding]; other site 338969008747 active site 338969008748 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 338969008749 zinc binding site [ion binding]; other site 338969008750 putative ligand binding site [chemical binding]; other site 338969008751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969008752 metal binding site [ion binding]; metal-binding site 338969008753 active site 338969008754 I-site; other site 338969008755 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 338969008756 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl17448 338969008757 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 338969008758 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 338969008759 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 338969008760 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 338969008761 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 338969008762 toxin interface [polypeptide binding]; other site 338969008763 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 338969008764 Zn binding site [ion binding]; other site 338969008765 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 338969008766 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 338969008767 PYR/PP interface [polypeptide binding]; other site 338969008768 dimer interface [polypeptide binding]; other site 338969008769 TPP binding site [chemical binding]; other site 338969008770 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338969008771 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 338969008772 tetramer interface [polypeptide binding]; other site 338969008773 TPP-binding site [chemical binding]; other site 338969008774 heterodimer interface [polypeptide binding]; other site 338969008775 phosphorylation loop region [posttranslational modification] 338969008776 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 338969008777 homotrimer interaction site [polypeptide binding]; other site 338969008778 putative active site [active] 338969008779 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969008780 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 338969008781 dimerization interface [polypeptide binding]; other site 338969008782 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969008783 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969008784 dimer interface [polypeptide binding]; other site 338969008785 putative CheW interface [polypeptide binding]; other site 338969008786 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 338969008787 catalytic center binding site [active] 338969008788 ATP binding site [chemical binding]; other site 338969008789 poly(A) polymerase; Region: pcnB; TIGR01942 338969008790 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 338969008791 active site 338969008792 NTP binding site [chemical binding]; other site 338969008793 metal binding triad [ion binding]; metal-binding site 338969008794 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 338969008795 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 338969008796 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 338969008797 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 338969008798 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 338969008799 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 338969008800 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 338969008801 dimerization interface [polypeptide binding]; other site 338969008802 putative ATP binding site [chemical binding]; other site 338969008803 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 338969008804 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969008805 putative substrate translocation pore; other site 338969008806 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 338969008807 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 338969008808 putative active site [active] 338969008809 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338969008810 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 338969008811 S-adenosylmethionine binding site [chemical binding]; other site 338969008812 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 338969008813 Transposase; Region: DEDD_Tnp_IS110; pfam01548 338969008814 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 338969008815 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 338969008816 catalytic triad [active] 338969008817 conserved cis-peptide bond; other site 338969008818 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 338969008819 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 338969008820 conserved cys residue [active] 338969008821 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338969008822 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 338969008823 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 338969008824 conserved cys residue [active] 338969008825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969008826 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_C39A; cd02549 338969008827 putative active site [active] 338969008828 TPR repeat; Region: TPR_11; pfam13414 338969008829 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 338969008830 binding surface 338969008831 TPR motif; other site 338969008832 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 338969008833 Tetratricopeptide repeat; Region: TPR_9; pfam13371 338969008834 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338969008835 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 338969008836 putative active site [active] 338969008837 Zn binding site [ion binding]; other site 338969008838 MoxR-like ATPases [General function prediction only]; Region: COG0714 338969008839 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 338969008840 Walker A motif; other site 338969008841 ATP binding site [chemical binding]; other site 338969008842 Walker B motif; other site 338969008843 arginine finger; other site 338969008844 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 338969008845 Protein of unknown function DUF58; Region: DUF58; pfam01882 338969008846 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 338969008847 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 338969008848 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 338969008849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969008850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969008851 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 338969008852 putative effector binding pocket; other site 338969008853 dimerization interface [polypeptide binding]; other site 338969008854 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 338969008855 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 338969008856 Predicted membrane protein [Function unknown]; Region: COG2259 338969008857 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 338969008858 putative active site [active] 338969008859 metal binding site [ion binding]; metal-binding site 338969008860 Predicted esterase [General function prediction only]; Region: COG0400 338969008861 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969008862 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl19483 338969008863 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 338969008864 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 338969008865 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 338969008866 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 338969008867 active site 338969008868 phosphorylation site [posttranslational modification] 338969008869 intermolecular recognition site; other site 338969008870 dimerization interface [polypeptide binding]; other site 338969008871 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 338969008872 DNA binding site [nucleotide binding] 338969008873 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 338969008874 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 338969008875 dimer interface [polypeptide binding]; other site 338969008876 phosphorylation site [posttranslational modification] 338969008877 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 338969008878 ATP binding site [chemical binding]; other site 338969008879 Mg2+ binding site [ion binding]; other site 338969008880 G-X-G motif; other site 338969008881 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 338969008882 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 338969008883 TrkA-N domain; Region: TrkA_N; pfam02254 338969008884 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 338969008885 putative hydrophobic ligand binding site [chemical binding]; other site 338969008886 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969008887 metal binding site [ion binding]; metal-binding site 338969008888 active site 338969008889 I-site; other site 338969008890 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 338969008891 Transglycosylase SLT domain; Region: SLT_2; pfam13406 338969008892 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 338969008893 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969008894 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 338969008895 SmpB-tmRNA interface; other site 338969008896 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 338969008897 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 338969008898 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 338969008899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969008900 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 338969008901 DNA binding residues [nucleotide binding] 338969008902 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 338969008903 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 338969008904 active site 338969008905 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 338969008906 dimer interface [polypeptide binding]; other site 338969008907 active site 338969008908 metal binding site [ion binding]; metal-binding site 338969008909 glutathione binding site [chemical binding]; other site 338969008910 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 338969008911 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; cl19078 338969008912 active site 338969008913 phosphorylation site [posttranslational modification] 338969008914 intermolecular recognition site; other site 338969008915 dimerization interface [polypeptide binding]; other site 338969008916 ANTAR domain; Region: ANTAR; pfam03861 338969008917 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 338969008918 NMT1-like family; Region: NMT1_2; pfam13379 338969008919 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 338969008920 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 338969008921 dimer interface [polypeptide binding]; other site 338969008922 conserved gate region; other site 338969008923 putative PBP binding loops; other site 338969008924 ABC-ATPase subunit interface; other site 338969008925 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 338969008926 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 338969008927 Walker A/P-loop; other site 338969008928 ATP binding site [chemical binding]; other site 338969008929 Q-loop/lid; other site 338969008930 ABC transporter signature motif; other site 338969008931 Walker B; other site 338969008932 D-loop; other site 338969008933 H-loop/switch region; other site 338969008934 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 338969008935 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969008936 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969008937 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 338969008938 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 338969008939 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 338969008940 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 338969008941 [2Fe-2S] cluster binding site [ion binding]; other site 338969008942 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 338969008943 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 338969008944 [4Fe-4S] binding site [ion binding]; other site 338969008945 molybdopterin cofactor binding site; other site 338969008946 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 338969008947 molybdopterin cofactor binding site; other site 338969008948 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 338969008949 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 338969008950 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 338969008951 NAD(P) binding site [chemical binding]; other site 338969008952 homotetramer interface [polypeptide binding]; other site 338969008953 homodimer interface [polypeptide binding]; other site 338969008954 active site 338969008955 putative acyltransferase; Provisional; Region: PRK05790 338969008956 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969008957 dimer interface [polypeptide binding]; other site 338969008958 active site 338969008959 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 338969008960 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 338969008961 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 338969008962 YcaO-like family; Region: YcaO; cl19253 338969008963 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 338969008964 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 338969008965 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 338969008966 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 338969008967 DctM-like transporters; Region: DctM; pfam06808 338969008968 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 338969008969 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 338969008970 Nudix N-terminal; Region: Nudix_N_2; pfam14803 338969008971 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 338969008972 nudix motif; other site 338969008973 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 338969008974 active site 338969008975 catalytic site [active] 338969008976 substrate binding site [chemical binding]; other site 338969008977 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 338969008978 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 338969008979 GIY-YIG motif/motif A; other site 338969008980 active site 338969008981 catalytic site [active] 338969008982 putative DNA binding site [nucleotide binding]; other site 338969008983 metal binding site [ion binding]; metal-binding site 338969008984 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 338969008985 Predicted membrane protein [Function unknown]; Region: COG2259 338969008986 Pirin-related protein [General function prediction only]; Region: COG1741 338969008987 Pirin; Region: Pirin; pfam02678 338969008988 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 338969008989 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 338969008990 CHRD domain; Region: CHRD; pfam07452 338969008991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 338969008992 replicative DNA helicase; Region: DnaB; TIGR00665 338969008993 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 338969008994 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 338969008995 Walker A motif; other site 338969008996 ATP binding site [chemical binding]; other site 338969008997 Walker B motif; other site 338969008998 DNA binding loops [nucleotide binding] 338969008999 acetyl-CoA synthetase; Provisional; Region: PRK00174 338969009000 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 338969009001 active site 338969009002 CoA binding site [chemical binding]; other site 338969009003 acyl-activating enzyme (AAE) consensus motif; other site 338969009004 AMP binding site [chemical binding]; other site 338969009005 acetate binding site [chemical binding]; other site 338969009006 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 338969009007 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 338969009008 Fumarase C-terminus; Region: Fumerase_C; pfam05683 338969009009 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969009010 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969009011 Walker A/P-loop; other site 338969009012 ATP binding site [chemical binding]; other site 338969009013 Q-loop/lid; other site 338969009014 ABC transporter signature motif; other site 338969009015 Walker B; other site 338969009016 D-loop; other site 338969009017 H-loop/switch region; other site 338969009018 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969009019 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969009020 Walker A/P-loop; other site 338969009021 ATP binding site [chemical binding]; other site 338969009022 Q-loop/lid; other site 338969009023 ABC transporter signature motif; other site 338969009024 Walker B; other site 338969009025 D-loop; other site 338969009026 H-loop/switch region; other site 338969009027 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969009028 TM-ABC transporter signature motif; other site 338969009029 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969009030 TM-ABC transporter signature motif; other site 338969009031 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 338969009032 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969009033 ligand binding site [chemical binding]; other site 338969009034 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969009035 enoyl-CoA hydratase; Provisional; Region: PRK07511 338969009036 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 338969009037 substrate binding site [chemical binding]; other site 338969009038 oxyanion hole (OAH) forming residues; other site 338969009039 trimer interface [polypeptide binding]; other site 338969009040 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 338969009041 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 338969009042 active site 338969009043 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 338969009044 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969009045 active site 338969009046 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 338969009047 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969009048 dimer interface [polypeptide binding]; other site 338969009049 active site 338969009050 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 338969009051 substrate binding site [chemical binding]; other site 338969009052 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 338969009053 oxyanion hole (OAH) forming residues; other site 338969009054 trimer interface [polypeptide binding]; other site 338969009055 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 338969009056 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969009057 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969009058 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 338969009059 Transcriptional regulator [Transcription]; Region: IclR; COG1414 338969009060 Bacterial transcriptional regulator; Region: IclR; pfam01614 338969009061 glutamate racemase; Provisional; Region: PRK00865 338969009062 methionine sulfoxide reductase A; Provisional; Region: PRK14054 338969009063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969009064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969009065 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969009066 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338969009067 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969009068 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 338969009069 MMPL family; Region: MMPL; cl14618 338969009070 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338969009071 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 338969009072 S-adenosylmethionine binding site [chemical binding]; other site 338969009073 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; cl00125 338969009074 active site residue [active] 338969009075 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 338969009076 Outer membrane efflux protein; Region: OEP; pfam02321 338969009077 Outer membrane efflux protein; Region: OEP; pfam02321 338969009078 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 338969009079 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 338969009080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969009081 homodimer interface [polypeptide binding]; other site 338969009082 catalytic residue [active] 338969009083 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 338969009084 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 338969009085 minor groove reading motif; other site 338969009086 helix-hairpin-helix signature motif; other site 338969009087 substrate binding pocket [chemical binding]; other site 338969009088 active site 338969009089 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 338969009090 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969009091 metal binding site [ion binding]; metal-binding site 338969009092 active site 338969009093 I-site; other site 338969009094 alpha-ribazole phosphatase; Region: ribazole_cobC; TIGR03162 338969009095 cobalamin synthase; Reviewed; Region: cobS; PRK00235 338969009096 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 338969009097 putative dimer interface [polypeptide binding]; other site 338969009098 active site pocket [active] 338969009099 putative cataytic base [active] 338969009100 cobyric acid synthase; Provisional; Region: PRK00784 338969009101 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 338969009102 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 338969009103 catalytic triad [active] 338969009104 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 338969009105 active site 338969009106 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 338969009107 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 338969009108 FeS/SAM binding site; other site 338969009109 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 338969009110 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 338969009111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969009112 homodimer interface [polypeptide binding]; other site 338969009113 catalytic residue [active] 338969009114 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 338969009115 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 338969009116 putative FMN binding site [chemical binding]; other site 338969009117 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 338969009118 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 338969009119 homodimer interface [polypeptide binding]; other site 338969009120 Walker A motif; other site 338969009121 ATP binding site [chemical binding]; other site 338969009122 hydroxycobalamin binding site [chemical binding]; other site 338969009123 Walker B motif; other site 338969009124 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338969009125 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969009126 Walker A/P-loop; other site 338969009127 ATP binding site [chemical binding]; other site 338969009128 Q-loop/lid; other site 338969009129 ABC transporter signature motif; other site 338969009130 Walker B; other site 338969009131 D-loop; other site 338969009132 H-loop/switch region; other site 338969009133 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 338969009134 ABC-ATPase subunit interface; other site 338969009135 dimer interface [polypeptide binding]; other site 338969009136 putative PBP binding regions; other site 338969009137 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 338969009138 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 338969009139 intersubunit interface [polypeptide binding]; other site 338969009140 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 338969009141 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 338969009142 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 338969009143 intersubunit interface [polypeptide binding]; other site 338969009144 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 338969009145 AAA ATPase domain; Region: AAA_16; pfam13191 338969009146 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 338969009147 catalytic triad [active] 338969009148 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 338969009149 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 338969009150 ATP synthase CF1 beta subunit; Region: atpB; CHL00060 338969009151 Cell division protein ZapA; Region: ZapA; pfam05164 338969009152 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338969009153 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 338969009154 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969009155 putative active site [active] 338969009156 heme pocket [chemical binding]; other site 338969009157 PAS domain; Region: PAS_8; pfam13188 338969009158 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969009159 putative active site [active] 338969009160 heme pocket [chemical binding]; other site 338969009161 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969009162 metal binding site [ion binding]; metal-binding site 338969009163 active site 338969009164 I-site; other site 338969009165 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969009166 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 338969009167 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969009168 Zn2+ binding site [ion binding]; other site 338969009169 Mg2+ binding site [ion binding]; other site 338969009170 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 338969009171 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 338969009172 C-terminal domain interface [polypeptide binding]; other site 338969009173 GSH binding site (G-site) [chemical binding]; other site 338969009174 dimer interface [polypeptide binding]; other site 338969009175 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 338969009176 N-terminal domain interface [polypeptide binding]; other site 338969009177 putative dimer interface [polypeptide binding]; other site 338969009178 active site 338969009179 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 338969009180 putative catalytic residue [active] 338969009181 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 338969009182 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 338969009183 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 338969009184 PAS domain; Region: PAS_9; pfam13426 338969009185 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969009186 putative active site [active] 338969009187 heme pocket [chemical binding]; other site 338969009188 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 338969009189 DNA binding residues [nucleotide binding] 338969009190 dimerization interface [polypeptide binding]; other site 338969009191 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969009192 PAS fold; Region: PAS_3; pfam08447 338969009193 putative active site [active] 338969009194 heme pocket [chemical binding]; other site 338969009195 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969009196 PAS domain; Region: PAS_9; pfam13426 338969009197 putative active site [active] 338969009198 heme pocket [chemical binding]; other site 338969009199 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969009200 metal binding site [ion binding]; metal-binding site 338969009201 active site 338969009202 I-site; other site 338969009203 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 338969009204 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 338969009205 S-adenosylmethionine binding site [chemical binding]; other site 338969009206 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 338969009207 RNA binding surface [nucleotide binding]; other site 338969009208 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 338969009209 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 338969009210 CAP-like domain; other site 338969009211 active site 338969009212 primary dimer interface [polypeptide binding]; other site 338969009213 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338969009214 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 338969009215 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 338969009216 ATP binding site [chemical binding]; other site 338969009217 Mg2+ binding site [ion binding]; other site 338969009218 G-X-G motif; other site 338969009219 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 338969009220 anchoring element; other site 338969009221 dimer interface [polypeptide binding]; other site 338969009222 ATP binding site [chemical binding]; other site 338969009223 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 338969009224 active site 338969009225 metal binding site [ion binding]; metal-binding site 338969009226 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 338969009227 Uncharacterized conserved protein [Function unknown]; Region: COG2850 338969009228 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 338969009229 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 338969009230 trimer interface [polypeptide binding]; other site 338969009231 active site 338969009232 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 338969009233 Flavoprotein; Region: Flavoprotein; cl19190 338969009234 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 338969009235 CTP synthetase; Validated; Region: pyrG; PRK05380 338969009236 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 338969009237 Catalytic site [active] 338969009238 active site 338969009239 UTP binding site [chemical binding]; other site 338969009240 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 338969009241 active site 338969009242 putative oxyanion hole; other site 338969009243 catalytic triad [active] 338969009244 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 338969009245 enolase; Provisional; Region: eno; PRK00077 338969009246 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 338969009247 dimer interface [polypeptide binding]; other site 338969009248 metal binding site [ion binding]; metal-binding site 338969009249 substrate binding pocket [chemical binding]; other site 338969009250 Septum formation initiator; Region: DivIC; cl17659 338969009251 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 338969009252 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 338969009253 dimerization interface [polypeptide binding]; other site 338969009254 domain crossover interface; other site 338969009255 redox-dependent activation switch; other site 338969009256 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 338969009257 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 338969009258 trimer interface [polypeptide binding]; other site 338969009259 putative metal binding site [ion binding]; other site 338969009260 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 338969009261 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 338969009262 active site 338969009263 DNA binding site [nucleotide binding] 338969009264 Int/Topo IB signature motif; other site 338969009265 Predicted permeases [General function prediction only]; Region: COG0679 338969009266 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 338969009267 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338969009268 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 338969009269 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969009270 catalytic residue [active] 338969009271 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 338969009272 dimer interface [polypeptide binding]; other site 338969009273 active site 338969009274 glycine-pyridoxal phosphate binding site [chemical binding]; other site 338969009275 folate binding site [chemical binding]; other site 338969009276 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 338969009277 ATP cone domain; Region: ATP-cone; pfam03477 338969009278 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 338969009279 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 338969009280 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 338969009281 PilX N-terminal; Region: PilX_N; pfam14341 338969009282 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 338969009283 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 338969009284 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 338969009285 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 338969009286 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338969009287 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 338969009288 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338969009289 Type II transport protein GspH; Region: GspH; pfam12019 338969009290 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 338969009291 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 338969009292 catalytic motif [active] 338969009293 Zn binding site [ion binding]; other site 338969009294 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 338969009295 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 338969009296 Lumazine binding domain; Region: Lum_binding; pfam00677 338969009297 Lumazine binding domain; Region: Lum_binding; pfam00677 338969009298 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 338969009299 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 338969009300 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 338969009301 dimerization interface [polypeptide binding]; other site 338969009302 active site 338969009303 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 338969009304 homopentamer interface [polypeptide binding]; other site 338969009305 active site 338969009306 transcription antitermination factor NusB; Region: nusB; TIGR01951 338969009307 putative RNA binding site [nucleotide binding]; other site 338969009308 aminotransferase; Validated; Region: PRK07337 338969009309 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 338969009310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969009311 homodimer interface [polypeptide binding]; other site 338969009312 catalytic residue [active] 338969009313 TolQ protein; Region: tolQ; TIGR02796 338969009314 TolR protein; Region: tolR; TIGR02801 338969009315 TolA protein; Region: tolA_full; TIGR02794 338969009316 TonB C terminal; Region: TonB_2; pfam13103 338969009317 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 338969009318 active site 338969009319 dimer interface [polypeptide binding]; other site 338969009320 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 338969009321 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338969009322 SLBB domain; Region: SLBB; pfam10531 338969009323 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 338969009324 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 338969009325 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 338969009326 substrate binding site; other site 338969009327 tetramer interface; other site 338969009328 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 338969009329 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 338969009330 CoA binding domain; Region: CoA_binding; cl17356 338969009331 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 338969009332 NAD(P) binding site [chemical binding]; other site 338969009333 homodimer interface [polypeptide binding]; other site 338969009334 substrate binding site [chemical binding]; other site 338969009335 active site 338969009336 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 338969009337 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 338969009338 active site 338969009339 HIGH motif; other site 338969009340 KMSKS motif; other site 338969009341 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 338969009342 homodimer interface [polypeptide binding]; other site 338969009343 substrate-cofactor binding pocket; other site 338969009344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969009345 catalytic residue [active] 338969009346 amidophosphoribosyltransferase; Provisional; Region: PRK09246 338969009347 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 338969009348 active site 338969009349 tetramer interface [polypeptide binding]; other site 338969009350 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969009351 active site 338969009352 Colicin V production protein; Region: Colicin_V; pfam02674 338969009353 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 338969009354 Sporulation related domain; Region: SPOR; pfam05036 338969009355 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 338969009356 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338969009357 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338969009358 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 338969009359 putative catalytic residues [active] 338969009360 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 338969009361 argininosuccinate synthase; Validated; Region: PRK05370 338969009362 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 338969009363 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 338969009364 putative NAD(P) binding site [chemical binding]; other site 338969009365 active site 338969009366 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 338969009367 FAD binding domain; Region: FAD_binding_4; pfam01565 338969009368 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 338969009369 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 338969009370 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969009371 Zn2+ binding site [ion binding]; other site 338969009372 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 338969009373 catalytic triad [active] 338969009374 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 338969009375 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 338969009376 putative deacylase active site [active] 338969009377 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 338969009378 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 338969009379 active site 338969009380 catalytic tetrad [active] 338969009381 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 338969009382 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969009383 acyl-activating enzyme (AAE) consensus motif; other site 338969009384 AMP binding site [chemical binding]; other site 338969009385 active site 338969009386 CoA binding site [chemical binding]; other site 338969009387 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 338969009388 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969009389 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 338969009390 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 338969009391 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 338969009392 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 338969009393 motif II; other site 338969009394 aminopeptidase N; Provisional; Region: pepN; PRK14015 338969009395 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 338969009396 Zn binding site [ion binding]; other site 338969009397 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 338969009398 AMP binding site [chemical binding]; other site 338969009399 metal binding site [ion binding]; metal-binding site 338969009400 active site 338969009401 Triacylglycerol lipase-like subfamily of the 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: Triacylglycerol_lipase_like; cd01847 338969009402 active site 338969009403 catalytic triad [active] 338969009404 oxyanion hole [active] 338969009405 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 338969009406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 338969009407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 338969009408 Homeodomain-like domain; Region: HTH_23; pfam13384 338969009409 Transposase; Region: HTH_Tnp_1; cl17663 338969009410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 338969009411 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 338969009412 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 338969009413 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 338969009414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 338969009415 zinc-finger binding domain of transposase IS66; Region: zf-IS66; pfam13005 338969009416 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 338969009417 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 338969009418 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969009419 H-loop/switch region; other site 338969009420 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 338969009421 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 338969009422 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969009423 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 338969009424 nucleophilic elbow; other site 338969009425 catalytic triad; other site 338969009426 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 338969009427 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 338969009428 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 338969009429 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 338969009430 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 338969009431 VCBS repeat; Region: VCBS_repeat; TIGR01965 338969009432 VCBS repeat; Region: VCBS_repeat; TIGR01965 338969009433 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 338969009434 Ca2+ binding site [ion binding]; other site 338969009435 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338969009436 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 338969009437 nucleophilic elbow; other site 338969009438 catalytic triad; other site 338969009439 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 338969009440 nucleophilic elbow; other site 338969009441 catalytic triad; other site 338969009442 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 338969009443 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 338969009444 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 338969009445 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 338969009446 putative active site [active] 338969009447 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338969009448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969009449 Walker A/P-loop; other site 338969009450 ATP binding site [chemical binding]; other site 338969009451 Q-loop/lid; other site 338969009452 ABC transporter signature motif; other site 338969009453 Walker B; other site 338969009454 D-loop; other site 338969009455 H-loop/switch region; other site 338969009456 Membrane protein of unknown function; Region: DUF360; pfam04020 338969009457 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 338969009458 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl19825 338969009459 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 338969009460 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 338969009461 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 338969009462 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338969009463 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 338969009464 active site 338969009465 ATP binding site [chemical binding]; other site 338969009466 substrate binding site [chemical binding]; other site 338969009467 activation loop (A-loop); other site 338969009468 HDOD domain; Region: HDOD; pfam08668 338969009469 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 338969009470 putative active site [active] 338969009471 metal binding site [ion binding]; metal-binding site 338969009472 Protein of unknown function (DUF541); Region: SIMPL; cl01077 338969009473 osmolarity response regulator; Provisional; Region: ompR; PRK09468 338969009474 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 338969009475 active site 338969009476 phosphorylation site [posttranslational modification] 338969009477 intermolecular recognition site; other site 338969009478 dimerization interface [polypeptide binding]; other site 338969009479 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 338969009480 DNA binding site [nucleotide binding] 338969009481 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969009482 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 338969009483 dimerization interface [polypeptide binding]; other site 338969009484 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 338969009485 dimer interface [polypeptide binding]; other site 338969009486 phosphorylation site [posttranslational modification] 338969009487 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 338969009488 ATP binding site [chemical binding]; other site 338969009489 Mg2+ binding site [ion binding]; other site 338969009490 G-X-G motif; other site 338969009491 hypothetical protein; Provisional; Region: PRK01254 338969009492 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 338969009493 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338969009494 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 338969009495 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 338969009496 active site 338969009497 phosphorylation site [posttranslational modification] 338969009498 intermolecular recognition site; other site 338969009499 dimerization interface [polypeptide binding]; other site 338969009500 Cytochrome c; Region: Cytochrom_C; cl11414 338969009501 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 338969009502 active site 338969009503 phosphorylation site [posttranslational modification] 338969009504 intermolecular recognition site; other site 338969009505 dimerization interface [polypeptide binding]; other site 338969009506 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 338969009507 active site 338969009508 phosphorylation site [posttranslational modification] 338969009509 intermolecular recognition site; other site 338969009510 dimerization interface [polypeptide binding]; other site 338969009511 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 338969009512 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 338969009513 heme-binding residues [chemical binding]; other site 338969009514 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 338969009515 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338969009516 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 338969009517 active site 338969009518 phosphorylation site [posttranslational modification] 338969009519 intermolecular recognition site; other site 338969009520 dimerization interface [polypeptide binding]; other site 338969009521 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 338969009522 Walker A motif; other site 338969009523 ATP binding site [chemical binding]; other site 338969009524 Walker B motif; other site 338969009525 arginine finger; other site 338969009526 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 338969009527 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969009528 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 338969009529 dimerization interface [polypeptide binding]; other site 338969009530 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 338969009531 dimer interface [polypeptide binding]; other site 338969009532 phosphorylation site [posttranslational modification] 338969009533 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 338969009534 ATP binding site [chemical binding]; other site 338969009535 Mg2+ binding site [ion binding]; other site 338969009536 G-X-G motif; other site 338969009537 putative oxidoreductase; Provisional; Region: PRK11579 338969009538 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 338969009539 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 338969009540 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 338969009541 putative acyl-acceptor binding pocket; other site 338969009542 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969009543 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 338969009544 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 338969009545 dimer interface [polypeptide binding]; other site 338969009546 conserved gate region; other site 338969009547 putative PBP binding loops; other site 338969009548 ABC-ATPase subunit interface; other site 338969009549 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 338969009550 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 338969009551 Walker A/P-loop; other site 338969009552 ATP binding site [chemical binding]; other site 338969009553 Q-loop/lid; other site 338969009554 ABC transporter signature motif; other site 338969009555 Walker B; other site 338969009556 D-loop; other site 338969009557 H-loop/switch region; other site 338969009558 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 338969009559 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 338969009560 substrate binding pocket [chemical binding]; other site 338969009561 membrane-bound complex binding site; other site 338969009562 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 338969009563 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969009564 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969009565 dimer interface [polypeptide binding]; other site 338969009566 putative CheW interface [polypeptide binding]; other site 338969009567 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969009568 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969009569 active site 338969009570 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 338969009571 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969009572 dimer interface [polypeptide binding]; other site 338969009573 active site 338969009574 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 338969009575 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 338969009576 substrate binding site [chemical binding]; other site 338969009577 oxyanion hole (OAH) forming residues; other site 338969009578 trimer interface [polypeptide binding]; other site 338969009579 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 338969009580 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969009581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969009582 Zn2+ binding site [ion binding]; other site 338969009583 Mg2+ binding site [ion binding]; other site 338969009584 Chromate transporter; Region: Chromate_transp; pfam02417 338969009585 Chromate transporter; Region: Chromate_transp; pfam02417 338969009586 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 338969009587 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 338969009588 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 338969009589 Clp amino terminal domain; Region: Clp_N; pfam02861 338969009590 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 338969009591 Walker A motif; other site 338969009592 ATP binding site [chemical binding]; other site 338969009593 Walker B motif; other site 338969009594 arginine finger; other site 338969009595 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; cl18944 338969009596 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 338969009597 Walker A motif; other site 338969009598 ATP binding site [chemical binding]; other site 338969009599 Walker B motif; other site 338969009600 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 338969009601 Uncharacterized conserved protein [Function unknown]; Region: COG2127 338969009602 isocitrate dehydrogenase; Reviewed; Region: PRK07006 338969009603 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 338969009604 adenosine kinase; Provisional; Region: PTZ00247 338969009605 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 338969009606 substrate binding site [chemical binding]; other site 338969009607 ATP binding site [chemical binding]; other site 338969009608 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 338969009609 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338969009610 active site 338969009611 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969009612 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338969009613 putative active site [active] 338969009614 heme pocket [chemical binding]; other site 338969009615 PAS domain; Region: PAS_8; pfam13188 338969009616 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338969009617 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 338969009618 dimer interface [polypeptide binding]; other site 338969009619 phosphorylation site [posttranslational modification] 338969009620 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 338969009621 ATP binding site [chemical binding]; other site 338969009622 Mg2+ binding site [ion binding]; other site 338969009623 G-X-G motif; other site 338969009624 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 338969009625 active site 338969009626 phosphorylation site [posttranslational modification] 338969009627 intermolecular recognition site; other site 338969009628 dimerization interface [polypeptide binding]; other site 338969009629 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 338969009630 intracellular protease, PfpI family; Region: PfpI; TIGR01382 338969009631 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 338969009632 conserved cys residue [active] 338969009633 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 338969009634 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969009635 Coenzyme A binding pocket [chemical binding]; other site 338969009636 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 338969009637 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 338969009638 dimer interface [polypeptide binding]; other site 338969009639 active site 338969009640 CoA binding pocket [chemical binding]; other site 338969009641 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 338969009642 S-adenosylmethionine binding site [chemical binding]; other site 338969009643 Protein of unknown function (DUF808); Region: DUF808; pfam05661 338969009644 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969009645 Zn2+ binding site [ion binding]; other site 338969009646 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 338969009647 putative hydrophobic ligand binding site [chemical binding]; other site 338969009648 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 338969009649 YccA-like proteins; Region: YccA_like; cd10433 338969009650 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 338969009651 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 338969009652 S-adenosylmethionine binding site [chemical binding]; other site 338969009653 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 338969009654 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338969009655 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969009656 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 338969009657 DNA binding residues [nucleotide binding] 338969009658 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 338969009659 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338969009660 Peptidase family M23; Region: Peptidase_M23; pfam01551 338969009661 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 338969009662 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 338969009663 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 338969009664 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 338969009665 NAD(P) binding site [chemical binding]; other site 338969009666 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 338969009667 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 338969009668 Ligand binding site; other site 338969009669 DXD motif; other site 338969009670 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 338969009671 response regulator GlrR; Provisional; Region: PRK15115 338969009672 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 338969009673 active site 338969009674 phosphorylation site [posttranslational modification] 338969009675 intermolecular recognition site; other site 338969009676 dimerization interface [polypeptide binding]; other site 338969009677 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 338969009678 Walker A motif; other site 338969009679 ATP binding site [chemical binding]; other site 338969009680 Walker B motif; other site 338969009681 arginine finger; other site 338969009682 YfhG lipoprotein; Region: Lipoprotein_20; cl08141 338969009683 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338969009684 HAMP domain; Region: HAMP; pfam00672 338969009685 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 338969009686 dimer interface [polypeptide binding]; other site 338969009687 phosphorylation site [posttranslational modification] 338969009688 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 338969009689 ATP binding site [chemical binding]; other site 338969009690 Mg2+ binding site [ion binding]; other site 338969009691 G-X-G motif; other site 338969009692 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 338969009693 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 338969009694 dimerization interface [polypeptide binding]; other site 338969009695 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969009696 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969009697 dimer interface [polypeptide binding]; other site 338969009698 putative CheW interface [polypeptide binding]; other site 338969009699 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 338969009700 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 338969009701 putative substrate translocation pore; other site 338969009702 lysophospholipid transporter LplT; Provisional; Region: PRK11195; cl19150 338969009703 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 338969009704 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 338969009705 Respiratory nitrate reductase alpha N-terminal; Region: Nitr_red_alph_N; pfam14710 338969009706 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 338969009707 [4Fe-4S] binding site [ion binding]; other site 338969009708 molybdopterin cofactor binding site [chemical binding]; other site 338969009709 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 338969009710 molybdopterin cofactor binding site; other site 338969009711 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 338969009712 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 338969009713 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; cl00470 338969009714 Respiratory nitrate reductase beta C-terminal; Region: Nitr_red_bet_C; pfam14711 338969009715 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 338969009716 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 338969009717 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 338969009718 FOG: CBS domain [General function prediction only]; Region: COG0517 338969009719 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 338969009720 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 338969009721 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 338969009722 TPP-binding site [chemical binding]; other site 338969009723 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 338969009724 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 338969009725 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 338969009726 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 338969009727 dimer interface [polypeptide binding]; other site 338969009728 PYR/PP interface [polypeptide binding]; other site 338969009729 TPP binding site [chemical binding]; other site 338969009730 substrate binding site [chemical binding]; other site 338969009731 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 338969009732 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; cl19102 338969009733 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969009734 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969009735 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; cl19102 338969009736 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 338969009737 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 338969009738 dimer interface [polypeptide binding]; other site 338969009739 substrate binding site [chemical binding]; other site 338969009740 metal binding site [ion binding]; metal-binding site 338969009741 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 338969009742 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338969009743 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969009744 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 338969009745 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 338969009746 carboxyltransferase (CT) interaction site; other site 338969009747 biotinylation site [posttranslational modification]; other site 338969009748 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 338969009749 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 338969009750 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 338969009751 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 338969009752 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 338969009753 Walker A; other site 338969009754 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 338969009755 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 338969009756 active site 338969009757 substrate binding site [chemical binding]; other site 338969009758 coenzyme B12 binding site [chemical binding]; other site 338969009759 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 338969009760 B12 binding site [chemical binding]; other site 338969009761 cobalt ligand [ion binding]; other site 338969009762 Transcriptional regulators [Transcription]; Region: GntR; COG1802 338969009763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969009764 DNA-binding site [nucleotide binding]; DNA binding site 338969009765 FCD domain; Region: FCD; pfam07729 338969009766 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 338969009767 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 338969009768 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 338969009769 dimerization interface [polypeptide binding]; other site 338969009770 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969009771 ligand binding site [chemical binding]; other site 338969009772 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 338969009773 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 338969009774 Proline dehydrogenase; Region: Pro_dh; pfam01619 338969009775 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 338969009776 Glutamate binding site [chemical binding]; other site 338969009777 NAD binding site [chemical binding]; other site 338969009778 catalytic residues [active] 338969009779 RES domain; Region: RES; smart00953 338969009780 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 338969009781 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 338969009782 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 338969009783 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338969009784 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969009785 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 338969009786 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 338969009787 carboxyltransferase (CT) interaction site; other site 338969009788 biotinylation site [posttranslational modification]; other site 338969009789 enoyl-CoA hydratase; Provisional; Region: PRK05995 338969009790 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 338969009791 substrate binding site [chemical binding]; other site 338969009792 oxyanion hole (OAH) forming residues; other site 338969009793 trimer interface [polypeptide binding]; other site 338969009794 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969009795 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969009796 active site 338969009797 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 338969009798 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 338969009799 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 338969009800 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 338969009801 SCP-2 sterol transfer family; Region: SCP2; pfam02036 338969009802 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 338969009803 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 338969009804 DNA binding residues [nucleotide binding] 338969009805 putative dimer interface [polypeptide binding]; other site 338969009806 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 338969009807 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 338969009808 Chromate transporter; Region: Chromate_transp; pfam02417 338969009809 Dodecin; Region: Dodecin; pfam07311 338969009810 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 338969009811 Ligand Binding Site [chemical binding]; other site 338969009812 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 338969009813 catalytic site [active] 338969009814 putative active site [active] 338969009815 putative substrate binding site [chemical binding]; other site 338969009816 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 338969009817 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 338969009818 S-adenosylmethionine binding site [chemical binding]; other site 338969009819 phosphoglycolate phosphatase; Provisional; Region: PRK13222 338969009820 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 338969009821 active site 338969009822 motif I; other site 338969009823 motif II; other site 338969009824 integrase; Provisional; Region: PRK09692 338969009825 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 338969009826 active site 338969009827 Int/Topo IB signature motif; other site 338969009828 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 338969009829 CHC2 zinc finger; Region: zf-CHC2; cl17510 338969009830 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 338969009831 Phage capsid family; Region: Phage_capsid; cl19393 338969009832 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 338969009833 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 338969009834 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 338969009835 selenophosphate synthetase; Provisional; Region: PRK00943 338969009836 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 338969009837 dimerization interface [polypeptide binding]; other site 338969009838 putative ATP binding site [chemical binding]; other site 338969009839 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 338969009840 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 338969009841 dimer interface [polypeptide binding]; other site 338969009842 acyl-activating enzyme (AAE) consensus motif; other site 338969009843 putative active site [active] 338969009844 AMP binding site [chemical binding]; other site 338969009845 putative CoA binding site [chemical binding]; other site 338969009846 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969009847 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969009848 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 338969009849 MoaE interaction surface [polypeptide binding]; other site 338969009850 MoeB interaction surface [polypeptide binding]; other site 338969009851 thiocarboxylated glycine; other site 338969009852 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 338969009853 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969009854 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969009855 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 338969009856 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 338969009857 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 338969009858 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 338969009859 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; cl19102 338969009860 DOMON-like domain of an uncharacterized protein family; Region: DOMON_like_cytochrome; cd09625 338969009861 putative ligand binding site [chemical binding]; other site 338969009862 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338969009863 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 338969009864 active site 338969009865 phosphorylation site [posttranslational modification] 338969009866 intermolecular recognition site; other site 338969009867 dimerization interface [polypeptide binding]; other site 338969009868 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 338969009869 Walker A motif; other site 338969009870 ATP binding site [chemical binding]; other site 338969009871 Walker B motif; other site 338969009872 arginine finger; other site 338969009873 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969009874 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 338969009875 dimer interface [polypeptide binding]; other site 338969009876 phosphorylation site [posttranslational modification] 338969009877 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 338969009878 ATP binding site [chemical binding]; other site 338969009879 Mg2+ binding site [ion binding]; other site 338969009880 G-X-G motif; other site 338969009881 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338969009882 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969009883 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 338969009884 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 338969009885 TOBE domain; Region: TOBE; cl01440 338969009886 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 338969009887 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 338969009888 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 338969009889 dimer interface [polypeptide binding]; other site 338969009890 conserved gate region; other site 338969009891 putative PBP binding loops; other site 338969009892 ABC-ATPase subunit interface; other site 338969009893 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 338969009894 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969009895 Walker A/P-loop; other site 338969009896 ATP binding site [chemical binding]; other site 338969009897 Q-loop/lid; other site 338969009898 ABC transporter signature motif; other site 338969009899 Walker B; other site 338969009900 D-loop; other site 338969009901 H-loop/switch region; other site 338969009902 TOBE domain; Region: TOBE; cl01440 338969009903 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 338969009904 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 338969009905 conserved cys residue [active] 338969009906 AzlC protein; Region: AzlC; pfam03591 338969009907 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 338969009908 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338969009909 GAF domain; Region: GAF; pfam01590 338969009910 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 338969009911 Walker A motif; other site 338969009912 ATP binding site [chemical binding]; other site 338969009913 Walker B motif; other site 338969009914 arginine finger; other site 338969009915 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969009916 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 338969009917 dimer interface [polypeptide binding]; other site 338969009918 active site 338969009919 metal binding site [ion binding]; metal-binding site 338969009920 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 338969009921 NAD(P) binding site [chemical binding]; other site 338969009922 catalytic residues [active] 338969009923 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 338969009924 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969009925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969009926 Walker A/P-loop; other site 338969009927 ATP binding site [chemical binding]; other site 338969009928 Q-loop/lid; other site 338969009929 ABC transporter signature motif; other site 338969009930 Walker B; other site 338969009931 D-loop; other site 338969009932 H-loop/switch region; other site 338969009933 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 338969009934 dimer interface [polypeptide binding]; other site 338969009935 conserved gate region; other site 338969009936 putative PBP binding loops; other site 338969009937 ABC-ATPase subunit interface; other site 338969009938 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 338969009939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969009940 PBP superfamily domain; Region: PBP_like; pfam12727 338969009941 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 338969009942 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 338969009943 DctM-like transporters; Region: DctM; pfam06808 338969009944 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 338969009945 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 338969009946 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 338969009947 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 338969009948 TPP-binding site; other site 338969009949 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 338969009950 PYR/PP interface [polypeptide binding]; other site 338969009951 dimer interface [polypeptide binding]; other site 338969009952 TPP binding site [chemical binding]; other site 338969009953 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338969009954 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 338969009955 substrate binding pocket [chemical binding]; other site 338969009956 chain length determination region; other site 338969009957 substrate-Mg2+ binding site; other site 338969009958 catalytic residues [active] 338969009959 aspartate-rich region 1; other site 338969009960 active site lid residues [active] 338969009961 aspartate-rich region 2; other site 338969009962 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 338969009963 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 338969009964 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 338969009965 [2Fe-2S] cluster binding site [ion binding]; other site 338969009966 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 338969009967 alpha subunit interface [polypeptide binding]; other site 338969009968 active site 338969009969 substrate binding site [chemical binding]; other site 338969009970 Fe binding site [ion binding]; other site 338969009971 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969009972 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 338969009973 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 338969009974 active site residue [active] 338969009975 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 338969009976 active site residue [active] 338969009977 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 338969009978 glycosyl transferase family protein; Provisional; Region: PRK08136 338969009979 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 338969009980 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 338969009981 active site 338969009982 SAM binding site [chemical binding]; other site 338969009983 homodimer interface [polypeptide binding]; other site 338969009984 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969009985 HI0933-like protein; Region: HI0933_like; pfam03486 338969009986 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969009987 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 338969009988 Yqey-like protein; Region: YqeY; pfam09424 338969009989 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 338969009990 Protein of unknown function (DUF615); Region: DUF615; pfam04751 338969009991 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 338969009992 MPT binding site; other site 338969009993 trimer interface [polypeptide binding]; other site 338969009994 serine O-acetyltransferase; Region: cysE; TIGR01172 338969009995 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 338969009996 trimer interface [polypeptide binding]; other site 338969009997 active site 338969009998 substrate binding site [chemical binding]; other site 338969009999 CoA binding site [chemical binding]; other site 338969010000 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 338969010001 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 338969010002 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 338969010003 active site 338969010004 dimerization interface [polypeptide binding]; other site 338969010005 PAS domain S-box; Region: sensory_box; TIGR00229 338969010006 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969010007 putative active site [active] 338969010008 heme pocket [chemical binding]; other site 338969010009 PAS fold; Region: PAS_3; pfam08447 338969010010 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338969010011 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969010012 putative active site [active] 338969010013 heme pocket [chemical binding]; other site 338969010014 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 338969010015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969010016 metal binding site [ion binding]; metal-binding site 338969010017 active site 338969010018 I-site; other site 338969010019 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969010020 Cytochrome c; Region: Cytochrom_C; cl11414 338969010021 Cytochrome c; Region: Cytochrom_C; pfam00034 338969010022 HI0933-like protein; Region: HI0933_like; pfam03486 338969010023 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969010024 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969010025 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 338969010026 Part of AAA domain; Region: AAA_19; pfam13245 338969010027 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 338969010028 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 338969010029 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 338969010030 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 338969010031 catalytic residues [active] 338969010032 transcription termination factor Rho; Provisional; Region: rho; PRK09376 338969010033 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 338969010034 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 338969010035 RNA binding site [nucleotide binding]; other site 338969010036 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 338969010037 multimer interface [polypeptide binding]; other site 338969010038 Walker A motif; other site 338969010039 ATP binding site [chemical binding]; other site 338969010040 Walker B motif; other site 338969010041 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 338969010042 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 338969010043 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 338969010044 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338969010045 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 338969010046 Walker A motif; other site 338969010047 ATP binding site [chemical binding]; other site 338969010048 Walker B motif; other site 338969010049 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 338969010050 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338969010051 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338969010052 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 338969010053 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 338969010054 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 338969010055 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 338969010056 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 338969010057 CoA-binding site [chemical binding]; other site 338969010058 ATP-binding [chemical binding]; other site 338969010059 hypothetical protein; Provisional; Region: PRK05287 338969010060 Domain of unknown function (DUF329); Region: DUF329; pfam03884 338969010061 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 338969010062 active site 338969010063 8-oxo-dGMP binding site [chemical binding]; other site 338969010064 nudix motif; other site 338969010065 metal binding site [ion binding]; metal-binding site 338969010066 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 338969010067 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338969010068 Walker A motif; other site 338969010069 ATP binding site [chemical binding]; other site 338969010070 Walker B motif; other site 338969010071 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 338969010072 heterotetramer interface [polypeptide binding]; other site 338969010073 active site pocket [active] 338969010074 cleavage site 338969010075 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 338969010076 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 338969010077 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 338969010078 SEC-C motif; Region: SEC-C; pfam02810 338969010079 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 338969010080 Peptidase family M23; Region: Peptidase_M23; pfam01551 338969010081 TMAO/DMSO reductase; Reviewed; Region: PRK05363 338969010082 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 338969010083 Moco binding site; other site 338969010084 metal coordination site [ion binding]; other site 338969010085 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 338969010086 diaminopimelate decarboxylase; Region: lysA; TIGR01048 338969010087 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 338969010088 active site 338969010089 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338969010090 substrate binding site [chemical binding]; other site 338969010091 catalytic residues [active] 338969010092 dimer interface [polypeptide binding]; other site 338969010093 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 338969010094 putative iron binding site [ion binding]; other site 338969010095 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 338969010096 Transglycosylase; Region: Transgly; pfam00912 338969010097 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 338969010098 Type IV pilus assembly protein PilM; Region: PilM_2; pfam11104 338969010099 Cell division protein FtsA; Region: FtsA; cl17206 338969010100 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338969010101 nucleotide binding site [chemical binding]; other site 338969010102 Fimbrial assembly protein (PilN); Region: PilN; cl19830 338969010103 Pilus assembly protein, PilO; Region: PilO; pfam04350 338969010104 Pilus assembly protein, PilP; Region: PilP; pfam04351 338969010105 AMIN domain; Region: AMIN; pfam11741 338969010106 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 338969010107 Secretin and TonB N terminus short domain; Region: STN; smart00965 338969010108 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 338969010109 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338969010110 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 338969010111 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 338969010112 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 338969010113 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 338969010114 ADP binding site [chemical binding]; other site 338969010115 magnesium binding site [ion binding]; other site 338969010116 putative shikimate binding site; other site 338969010117 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 338969010118 active site 338969010119 dimer interface [polypeptide binding]; other site 338969010120 metal binding site [ion binding]; metal-binding site 338969010121 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 338969010122 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969010123 Zn2+ binding site [ion binding]; other site 338969010124 Mg2+ binding site [ion binding]; other site 338969010125 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 338969010126 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 338969010127 Methyltransferase domain; Region: Methyltransf_32; pfam13679 338969010128 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338969010129 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 338969010130 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 338969010131 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 338969010132 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 338969010133 active site 338969010134 dimer interface [polypeptide binding]; other site 338969010135 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 338969010136 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 338969010137 active site 338969010138 FMN binding site [chemical binding]; other site 338969010139 substrate binding site [chemical binding]; other site 338969010140 3Fe-4S cluster binding site [ion binding]; other site 338969010141 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 338969010142 domain interface; other site 338969010143 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 338969010144 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 338969010145 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 338969010146 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338969010147 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 338969010148 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 338969010149 Walker A/P-loop; other site 338969010150 ATP binding site [chemical binding]; other site 338969010151 Q-loop/lid; other site 338969010152 ABC transporter signature motif; other site 338969010153 Walker B; other site 338969010154 D-loop; other site 338969010155 H-loop/switch region; other site 338969010156 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 338969010157 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 338969010158 mce related protein; Region: MCE; pfam02470 338969010159 VacJ like lipoprotein; Region: VacJ; cl01073 338969010160 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 338969010161 STAS domain; Region: STAS_2; pfam13466 338969010162 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338969010163 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 338969010164 Walker A/P-loop; other site 338969010165 ATP binding site [chemical binding]; other site 338969010166 Q-loop/lid; other site 338969010167 ABC transporter signature motif; other site 338969010168 Walker B; other site 338969010169 D-loop; other site 338969010170 H-loop/switch region; other site 338969010171 ABC-2 type transporter; Region: ABC2_membrane; cl17235 338969010172 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 338969010173 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 338969010174 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 338969010175 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 338969010176 hinge; other site 338969010177 active site 338969010178 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 338969010179 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 338969010180 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 338969010181 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 338969010182 NAD binding site [chemical binding]; other site 338969010183 dimerization interface [polypeptide binding]; other site 338969010184 product binding site; other site 338969010185 substrate binding site [chemical binding]; other site 338969010186 zinc binding site [ion binding]; other site 338969010187 catalytic residues [active] 338969010188 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 338969010189 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 338969010190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969010191 homodimer interface [polypeptide binding]; other site 338969010192 catalytic residue [active] 338969010193 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 338969010194 putative active site pocket [active] 338969010195 4-fold oligomerization interface [polypeptide binding]; other site 338969010196 metal binding residues [ion binding]; metal-binding site 338969010197 3-fold/trimer interface [polypeptide binding]; other site 338969010198 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 338969010199 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 338969010200 putative active site [active] 338969010201 oxyanion strand; other site 338969010202 catalytic triad [active] 338969010203 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 338969010204 catalytic residues [active] 338969010205 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 338969010206 substrate binding site [chemical binding]; other site 338969010207 glutamase interaction surface [polypeptide binding]; other site 338969010208 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 338969010209 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 338969010210 metal binding site [ion binding]; metal-binding site 338969010211 Predicted membrane protein [Function unknown]; Region: COG3671 338969010212 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 338969010213 nucleotide binding site/active site [active] 338969010214 HIT family signature motif; other site 338969010215 catalytic residue [active] 338969010216 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 338969010217 sec-independent translocase; Provisional; Region: tatB; PRK01919 338969010218 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 338969010219 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 338969010220 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 338969010221 PDZ domain of trypsin-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 338969010222 protein binding site [polypeptide binding]; other site 338969010223 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 338969010224 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 338969010225 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 338969010226 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 338969010227 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 338969010228 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 338969010229 [2Fe-2S] cluster binding site [ion binding]; other site 338969010230 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 338969010231 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 338969010232 Qi binding site; other site 338969010233 intrachain domain interface; other site 338969010234 interchain domain interface [polypeptide binding]; other site 338969010235 heme bH binding site [chemical binding]; other site 338969010236 heme bL binding site [chemical binding]; other site 338969010237 Qo binding site; other site 338969010238 interchain domain interface [polypeptide binding]; other site 338969010239 intrachain domain interface; other site 338969010240 Qi binding site; other site 338969010241 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 338969010242 Qo binding site; other site 338969010243 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 338969010244 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 338969010245 stringent starvation protein A; Provisional; Region: sspA; PRK09481 338969010246 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 338969010247 C-terminal domain interface [polypeptide binding]; other site 338969010248 putative GSH binding site (G-site) [chemical binding]; other site 338969010249 dimer interface [polypeptide binding]; other site 338969010250 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 338969010251 N-terminal domain interface [polypeptide binding]; other site 338969010252 dimer interface [polypeptide binding]; other site 338969010253 substrate binding pocket (H-site) [chemical binding]; other site 338969010254 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 338969010255 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 338969010256 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969010257 substrate binding pocket [chemical binding]; other site 338969010258 membrane-bound complex binding site; other site 338969010259 hinge residues; other site 338969010260 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969010261 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 338969010262 dimer interface [polypeptide binding]; other site 338969010263 conserved gate region; other site 338969010264 putative PBP binding loops; other site 338969010265 ABC-ATPase subunit interface; other site 338969010266 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969010267 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969010268 Walker A/P-loop; other site 338969010269 ATP binding site [chemical binding]; other site 338969010270 Q-loop/lid; other site 338969010271 ABC transporter signature motif; other site 338969010272 Walker B; other site 338969010273 D-loop; other site 338969010274 H-loop/switch region; other site 338969010275 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 338969010276 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 338969010277 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 338969010278 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 338969010279 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 338969010280 dimer interaction site [polypeptide binding]; other site 338969010281 substrate-binding tunnel; other site 338969010282 active site 338969010283 catalytic site [active] 338969010284 substrate binding site [chemical binding]; other site 338969010285 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 338969010286 Acetokinase family; Region: Acetate_kinase; cl17229 338969010287 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 338969010288 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 338969010289 active site 338969010290 uracil binding [chemical binding]; other site 338969010291 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 338969010292 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 338969010293 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 338969010294 putative MPT binding site; other site 338969010295 glutamine synthetase; Provisional; Region: glnA; PRK09469 338969010296 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 338969010297 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 338969010298 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338969010299 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 338969010300 dimer interface [polypeptide binding]; other site 338969010301 phosphorylation site [posttranslational modification] 338969010302 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 338969010303 ATP binding site [chemical binding]; other site 338969010304 Mg2+ binding site [ion binding]; other site 338969010305 G-X-G motif; other site 338969010306 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 338969010307 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 338969010308 active site 338969010309 phosphorylation site [posttranslational modification] 338969010310 intermolecular recognition site; other site 338969010311 dimerization interface [polypeptide binding]; other site 338969010312 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 338969010313 Walker A motif; other site 338969010314 ATP binding site [chemical binding]; other site 338969010315 Walker B motif; other site 338969010316 arginine finger; other site 338969010317 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969010318 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 338969010319 putative catalytic site [active] 338969010320 putative phosphate binding site [ion binding]; other site 338969010321 active site 338969010322 metal binding site A [ion binding]; metal-binding site 338969010323 DNA binding site [nucleotide binding] 338969010324 putative AP binding site [nucleotide binding]; other site 338969010325 putative metal binding site B [ion binding]; other site 338969010326 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 338969010327 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 338969010328 folate binding site [chemical binding]; other site 338969010329 NADP+ binding site [chemical binding]; other site 338969010330 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 338969010331 dimerization interface [polypeptide binding]; other site 338969010332 active site 338969010333 CcdB protein; Region: CcdB; cl03380 338969010334 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 338969010335 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 338969010336 FAD binding domain; Region: FAD_binding_4; pfam01565 338969010337 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 338969010338 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 338969010339 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 338969010340 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 338969010341 Transglycosylase; Region: Transgly; cl19357 338969010342 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 338969010343 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 338969010344 active site 338969010345 homotetramer interface [polypeptide binding]; other site 338969010346 homodimer interface [polypeptide binding]; other site 338969010347 LexA repressor; Validated; Region: PRK00215 338969010348 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 338969010349 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 338969010350 Catalytic site [active] 338969010351 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 338969010352 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 338969010353 dimerization interface [polypeptide binding]; other site 338969010354 NAD binding site [chemical binding]; other site 338969010355 ligand binding site [chemical binding]; other site 338969010356 catalytic site [active] 338969010357 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 338969010358 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 338969010359 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 338969010360 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 338969010361 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 338969010362 putative active site [active] 338969010363 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 338969010364 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 338969010365 active site 338969010366 substrate binding site [chemical binding]; other site 338969010367 metal binding site [ion binding]; metal-binding site 338969010368 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 338969010369 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 338969010370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969010371 AlkA N-terminal domain; Region: AlkA_N; pfam06029 338969010372 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 338969010373 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 338969010374 helix-hairpin-helix signature motif; other site 338969010375 active site 338969010376 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 338969010377 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 338969010378 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 338969010379 DNA binding site [nucleotide binding] 338969010380 active site 338969010381 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969010382 EamA-like transporter family; Region: EamA; pfam00892 338969010383 EamA-like transporter family; Region: EamA; pfam00892 338969010384 Uncharacterized conserved protein [Function unknown]; Region: COG2128 338969010385 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 338969010386 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338969010387 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 338969010388 putative dimer interface [polypeptide binding]; other site 338969010389 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 338969010390 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 338969010391 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 338969010392 Walker A motif; other site 338969010393 ATP binding site [chemical binding]; other site 338969010394 Walker B motif; other site 338969010395 arginine finger; other site 338969010396 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338969010397 BON domain; Region: BON; pfam04972 338969010398 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 338969010399 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 338969010400 ring oligomerisation interface [polypeptide binding]; other site 338969010401 ATP/Mg binding site [chemical binding]; other site 338969010402 stacking interactions; other site 338969010403 hinge regions; other site 338969010404 Protein required for attachment to host cells; Region: Host_attach; pfam10116 338969010405 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 338969010406 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 338969010407 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 338969010408 active site 338969010409 dimer interface [polypeptide binding]; other site 338969010410 effector binding site; other site 338969010411 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969010412 PAS domain; Region: PAS_9; pfam13426 338969010413 putative active site [active] 338969010414 heme pocket [chemical binding]; other site 338969010415 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969010416 putative active site [active] 338969010417 PAS fold; Region: PAS_3; pfam08447 338969010418 heme pocket [chemical binding]; other site 338969010419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969010420 metal binding site [ion binding]; metal-binding site 338969010421 active site 338969010422 I-site; other site 338969010423 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 338969010424 CheB methylesterase; Region: CheB_methylest; pfam01339 338969010425 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 338969010426 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338969010427 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 338969010428 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 338969010429 PAS domain; Region: PAS_10; pfam13596 338969010430 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 338969010431 active site 338969010432 Chorismate lyase; Region: Chor_lyase; cl01230 338969010433 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969010434 short chain dehydrogenase; Provisional; Region: PRK06949 338969010435 classical (c) SDRs; Region: SDR_c; cd05233 338969010436 NAD(P) binding site [chemical binding]; other site 338969010437 active site 338969010438 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 338969010439 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969010440 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 338969010441 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; cl19102 338969010442 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338969010443 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 338969010444 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 338969010445 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 338969010446 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 338969010447 lipoyl attachment site [posttranslational modification]; other site 338969010448 glycine dehydrogenase; Provisional; Region: PRK05367 338969010449 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 338969010450 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969010451 catalytic residue [active] 338969010452 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 338969010453 tetramer interface [polypeptide binding]; other site 338969010454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969010455 catalytic residue [active] 338969010456 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 338969010457 methyl-accepting protein IV; Provisional; Region: PRK09793 338969010458 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969010459 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 338969010460 dimerization interface [polypeptide binding]; other site 338969010461 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969010462 dimer interface [polypeptide binding]; other site 338969010463 putative CheW interface [polypeptide binding]; other site 338969010464 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 338969010465 FMN binding site [chemical binding]; other site 338969010466 active site 338969010467 catalytic residues [active] 338969010468 substrate binding site [chemical binding]; other site 338969010469 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969010470 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 338969010471 ligand binding site [chemical binding]; other site 338969010472 flexible hinge region; other site 338969010473 Domain of unknown function DUF21; Region: DUF21; pfam01595 338969010474 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 338969010475 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 338969010476 Transporter associated domain; Region: CorC_HlyC; smart01091 338969010477 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 338969010478 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 338969010479 active site 338969010480 metal binding site [ion binding]; metal-binding site 338969010481 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 338969010482 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 338969010483 ATP binding site [chemical binding]; other site 338969010484 Mg++ binding site [ion binding]; other site 338969010485 motif III; other site 338969010486 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 338969010487 nucleotide binding region [chemical binding]; other site 338969010488 ATP-binding site [chemical binding]; other site 338969010489 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 338969010490 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 338969010491 L-aspartate oxidase; Provisional; Region: PRK09077 338969010492 L-aspartate oxidase; Provisional; Region: PRK06175 338969010493 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 338969010494 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 338969010495 tetramerization interface [polypeptide binding]; other site 338969010496 active site 338969010497 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 338969010498 oligomerization interface [polypeptide binding]; other site 338969010499 active site 338969010500 metal binding site [ion binding]; metal-binding site 338969010501 Pantoate-beta-alanine ligase; Region: PanC; cd00560 338969010502 active site 338969010503 ATP-binding site [chemical binding]; other site 338969010504 pantoate-binding site; other site 338969010505 HXXH motif; other site 338969010506 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 338969010507 Part of AAA domain; Region: AAA_19; pfam13245 338969010508 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 338969010509 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 338969010510 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 338969010511 active site 338969010512 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338969010513 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 338969010514 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 338969010515 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 338969010516 active site 338969010517 DNA binding site [nucleotide binding] 338969010518 Int/Topo IB signature motif; other site 338969010519 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 338969010520 Part of AAA domain; Region: AAA_19; pfam13245 338969010521 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 338969010522 AAA domain; Region: AAA_30; pfam13604 338969010523 AAA domain; Region: AAA_12; pfam13087 338969010524 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 338969010525 putative active site [active] 338969010526 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 338969010527 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 338969010528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969010529 ABC transporter signature motif; other site 338969010530 Walker B; other site 338969010531 D-loop; other site 338969010532 H-loop/switch region; other site 338969010533 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 338969010534 AAA domain; Region: AAA_23; pfam13476 338969010535 Walker A/P-loop; other site 338969010536 ATP binding site [chemical binding]; other site 338969010537 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 338969010538 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 338969010539 active site 338969010540 metal binding site [ion binding]; metal-binding site 338969010541 DNA binding site [nucleotide binding] 338969010542 Predicted transcriptional regulator [Transcription]; Region: COG2378 338969010543 HTH domain; Region: HTH_11; cl17392 338969010544 WYL domain; Region: WYL; pfam13280 338969010545 Short C-terminal domain; Region: SHOCT; pfam09851 338969010546 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 338969010547 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; smart00864 338969010548 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 338969010549 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 338969010550 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 338969010551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 338969010552 zinc-finger binding domain of transposase IS66; Region: zf-IS66; pfam13005 338969010553 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 338969010554 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 338969010555 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 338969010556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 338969010557 Transposase; Region: HTH_Tnp_1; cl17663 338969010558 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 338969010559 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 338969010560 non-specific DNA binding site [nucleotide binding]; other site 338969010561 salt bridge; other site 338969010562 sequence-specific DNA binding site [nucleotide binding]; other site 338969010563 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338969010564 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 338969010565 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969010566 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 338969010567 DNA binding residues [nucleotide binding] 338969010568 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 338969010569 ATP binding site [chemical binding]; other site 338969010570 Mg2+ binding site [ion binding]; other site 338969010571 G-X-G motif; other site 338969010572 Z1 domain; Region: Z1; pfam10593 338969010573 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 338969010574 AIPR protein; Region: AIPR; pfam10592 338969010575 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 338969010576 additional DNA contacts [nucleotide binding]; other site 338969010577 mismatch recognition site; other site 338969010578 active site 338969010579 zinc binding site [ion binding]; other site 338969010580 DNA intercalation site [nucleotide binding]; other site 338969010581 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 338969010582 cofactor binding site; other site 338969010583 DNA binding site [nucleotide binding] 338969010584 substrate interaction site [chemical binding]; other site 338969010585 B12 binding domain; Region: B12-binding; pfam02310 338969010586 B12 binding site [chemical binding]; other site 338969010587 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 338969010588 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338969010589 FeS/SAM binding site; other site 338969010590 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 338969010591 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 338969010592 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 338969010593 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 338969010594 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 338969010595 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 338969010596 active site 338969010597 phosphorylation site [posttranslational modification] 338969010598 intermolecular recognition site; other site 338969010599 dimerization interface [polypeptide binding]; other site 338969010600 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 338969010601 DNA binding residues [nucleotide binding] 338969010602 dimerization interface [polypeptide binding]; other site 338969010603 MASE1; Region: MASE1; cl17823 338969010604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 338969010605 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 338969010606 phosphorylation site [posttranslational modification] 338969010607 dimer interface [polypeptide binding]; other site 338969010608 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 338969010609 ATP binding site [chemical binding]; other site 338969010610 Mg2+ binding site [ion binding]; other site 338969010611 G-X-G motif; other site 338969010612 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 338969010613 arsenite oxidase, large subunit; Region: arsenite_ox_L; TIGR02693 338969010614 molybdopterin cofactor binding site; other site 338969010615 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 338969010616 molybdopterin cofactor binding site; other site 338969010617 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 338969010618 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 338969010619 iron-sulfur cluster [ion binding]; other site 338969010620 [2Fe-2S] cluster binding site [ion binding]; other site 338969010621 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 338969010622 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338969010623 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969010624 HAMP domain; Region: HAMP; pfam00672 338969010625 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 338969010626 dimer interface [polypeptide binding]; other site 338969010627 phosphorylation site [posttranslational modification] 338969010628 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 338969010629 ATP binding site [chemical binding]; other site 338969010630 Mg2+ binding site [ion binding]; other site 338969010631 G-X-G motif; other site 338969010632 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338969010633 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 338969010634 active site 338969010635 phosphorylation site [posttranslational modification] 338969010636 intermolecular recognition site; other site 338969010637 dimerization interface [polypeptide binding]; other site 338969010638 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 338969010639 Walker A motif; other site 338969010640 ATP binding site [chemical binding]; other site 338969010641 Walker B motif; other site 338969010642 arginine finger; other site 338969010643 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969010644 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 338969010645 Walker A motif; other site 338969010646 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338969010647 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; cl19102 338969010648 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338969010649 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 338969010650 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 338969010651 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 338969010652 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; cl19102 338969010653 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 338969010654 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 338969010655 molybdopterin cofactor binding site; other site 338969010656 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 338969010657 molybdopterin cofactor binding site; other site 338969010658 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 338969010659 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338969010660 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969010661 HAMP domain; Region: HAMP; pfam00672 338969010662 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 338969010663 dimer interface [polypeptide binding]; other site 338969010664 phosphorylation site [posttranslational modification] 338969010665 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 338969010666 ATP binding site [chemical binding]; other site 338969010667 Mg2+ binding site [ion binding]; other site 338969010668 G-X-G motif; other site 338969010669 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338969010670 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 338969010671 active site 338969010672 phosphorylation site [posttranslational modification] 338969010673 intermolecular recognition site; other site 338969010674 dimerization interface [polypeptide binding]; other site 338969010675 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 338969010676 Walker A motif; other site 338969010677 ATP binding site [chemical binding]; other site 338969010678 Walker B motif; other site 338969010679 arginine finger; other site 338969010680 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 338969010681 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 338969010682 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 338969010683 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 338969010684 putative active site [active] 338969010685 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 338969010686 catalytic nucleophile [active] 338969010687 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 338969010688 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969010689 Walker A/P-loop; other site 338969010690 ATP binding site [chemical binding]; other site 338969010691 Q-loop/lid; other site 338969010692 ABC transporter signature motif; other site 338969010693 Walker B; other site 338969010694 D-loop; other site 338969010695 H-loop/switch region; other site 338969010696 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969010697 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338969010698 Walker A/P-loop; other site 338969010699 ATP binding site [chemical binding]; other site 338969010700 Q-loop/lid; other site 338969010701 ABC transporter signature motif; other site 338969010702 Walker B; other site 338969010703 D-loop; other site 338969010704 H-loop/switch region; other site 338969010705 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338969010706 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 338969010707 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 338969010708 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 338969010709 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 338969010710 dimer interface [polypeptide binding]; other site 338969010711 conserved gate region; other site 338969010712 putative PBP binding loops; other site 338969010713 ABC-ATPase subunit interface; other site 338969010714 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 338969010715 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 338969010716 dimer interface [polypeptide binding]; other site 338969010717 conserved gate region; other site 338969010718 putative PBP binding loops; other site 338969010719 ABC-ATPase subunit interface; other site 338969010720 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 338969010721 homodimer interface [polypeptide binding]; other site 338969010722 homotetramer interface [polypeptide binding]; other site 338969010723 active site pocket [active] 338969010724 cleavage site 338969010725 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 338969010726 SxDxEG motif; other site 338969010727 active site 338969010728 metal binding site [ion binding]; metal-binding site 338969010729 homopentamer interface [polypeptide binding]; other site 338969010730 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 338969010731 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 338969010732 SmpA / OmlA family; Region: SmpA_OmlA; cl19285 338969010733 SmpA / OmlA family; Region: SmpA_OmlA; cl19285 338969010734 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 338969010735 glutathione s-transferase; Provisional; Region: PTZ00057 338969010736 GSH binding site (G-site) [chemical binding]; other site 338969010737 C-terminal domain interface [polypeptide binding]; other site 338969010738 dimer interface [polypeptide binding]; other site 338969010739 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 338969010740 dimer interface [polypeptide binding]; other site 338969010741 N-terminal domain interface [polypeptide binding]; other site 338969010742 substrate binding pocket (H-site) [chemical binding]; other site 338969010743 LysE type translocator; Region: LysE; cl00565 338969010744 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 338969010745 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 338969010746 dimer interface [polypeptide binding]; other site 338969010747 conserved gate region; other site 338969010748 putative PBP binding loops; other site 338969010749 ABC-ATPase subunit interface; other site 338969010750 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 338969010751 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 338969010752 Walker A/P-loop; other site 338969010753 ATP binding site [chemical binding]; other site 338969010754 Q-loop/lid; other site 338969010755 ABC transporter signature motif; other site 338969010756 Walker B; other site 338969010757 D-loop; other site 338969010758 H-loop/switch region; other site 338969010759 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 338969010760 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 338969010761 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 338969010762 trimer interface [polypeptide binding]; other site 338969010763 eyelet of channel; other site 338969010764 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 338969010765 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 338969010766 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 338969010767 dimerization interface [polypeptide binding]; other site 338969010768 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969010769 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969010770 dimer interface [polypeptide binding]; other site 338969010771 putative CheW interface [polypeptide binding]; other site 338969010772 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 338969010773 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 338969010774 active site 338969010775 phosphorylation site [posttranslational modification] 338969010776 intermolecular recognition site; other site 338969010777 dimerization interface [polypeptide binding]; other site 338969010778 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 338969010779 DNA binding site [nucleotide binding] 338969010780 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 338969010781 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 338969010782 HAMP domain; Region: HAMP; pfam00672 338969010783 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 338969010784 dimer interface [polypeptide binding]; other site 338969010785 phosphorylation site [posttranslational modification] 338969010786 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 338969010787 ATP binding site [chemical binding]; other site 338969010788 Mg2+ binding site [ion binding]; other site 338969010789 G-X-G motif; other site 338969010790 Phasin protein; Region: Phasin_2; pfam09361 338969010791 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 338969010792 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 338969010793 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 338969010794 Transcriptional regulator [Transcription]; Region: IclR; COG1414 338969010795 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 338969010796 Bacterial transcriptional regulator; Region: IclR; pfam01614 338969010797 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 338969010798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969010799 NAD(P) binding site [chemical binding]; other site 338969010800 active site 338969010801 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 338969010802 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 338969010803 Walker A/P-loop; other site 338969010804 ATP binding site [chemical binding]; other site 338969010805 Q-loop/lid; other site 338969010806 ABC transporter signature motif; other site 338969010807 Walker B; other site 338969010808 D-loop; other site 338969010809 H-loop/switch region; other site 338969010810 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 338969010811 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 338969010812 TM-ABC transporter signature motif; other site 338969010813 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 338969010814 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 338969010815 putative ligand binding site [chemical binding]; other site 338969010816 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 338969010817 trimer interface [polypeptide binding]; other site 338969010818 eyelet of channel; other site 338969010819 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 338969010820 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 338969010821 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 338969010822 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 338969010823 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 338969010824 putative active site pocket [active] 338969010825 metal binding site [ion binding]; metal-binding site 338969010826 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 338969010827 short chain dehydrogenase; Provisional; Region: PRK08628 338969010828 classical (c) SDRs; Region: SDR_c; cd05233 338969010829 NAD(P) binding site [chemical binding]; other site 338969010830 active site 338969010831 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969010832 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969010833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969010834 dimer interface [polypeptide binding]; other site 338969010835 putative CheW interface [polypeptide binding]; other site 338969010836 Domain of unknown function (DUF718); Region: DUF718; pfam05336 338969010837 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 338969010838 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 338969010839 dimer interface [polypeptide binding]; other site 338969010840 active site 338969010841 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969010842 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969010843 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 338969010844 classical (c) SDRs; Region: SDR_c; cd05233 338969010845 NAD(P) binding site [chemical binding]; other site 338969010846 active site 338969010847 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 338969010848 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969010849 Coenzyme A binding pocket [chemical binding]; other site 338969010850 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 338969010851 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969010852 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 338969010853 DNA binding residues [nucleotide binding] 338969010854 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 338969010855 Cupin domain; Region: Cupin_2; cl17218 338969010856 Guanylate kinase; Region: Guanylate_kin; pfam00625 338969010857 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 338969010858 catalytic site [active] 338969010859 G-X2-G-X-G-K; other site 338969010860 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 338969010861 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 338969010862 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969010863 Zn2+ binding site [ion binding]; other site 338969010864 Mg2+ binding site [ion binding]; other site 338969010865 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 338969010866 synthetase active site [active] 338969010867 NTP binding site [chemical binding]; other site 338969010868 metal binding site [ion binding]; metal-binding site 338969010869 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 338969010870 ACT domain; Region: ACT_4; pfam13291 338969010871 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 338969010872 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 338969010873 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338969010874 superoxide dismutase; Provisional; Region: PRK10543 338969010875 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 338969010876 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 338969010877 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 338969010878 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 338969010879 generic binding surface II; other site 338969010880 generic binding surface I; other site 338969010881 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 338969010882 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 338969010883 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 338969010884 Uncharacterized conserved protein [Function unknown]; Region: COG2835 338969010885 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 338969010886 Ligand binding site; other site 338969010887 oligomer interface; other site 338969010888 adenylate kinase; Reviewed; Region: adk; PRK00279 338969010889 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 338969010890 AMP-binding site [chemical binding]; other site 338969010891 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 338969010892 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969010893 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969010894 Serine hydrolase (FSH1); Region: FSH1; pfam03959 338969010895 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 338969010896 homodimer interface [polypeptide binding]; other site 338969010897 substrate-cofactor binding pocket; other site 338969010898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969010899 catalytic residue [active] 338969010900 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 338969010901 Tetramer interface [polypeptide binding]; other site 338969010902 active site 338969010903 FMN-binding site [chemical binding]; other site 338969010904 High potential iron-sulfur protein; Region: HIPIP; pfam01355 338969010905 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 338969010906 putative ligand binding site [chemical binding]; other site 338969010907 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 338969010908 TM-ABC transporter signature motif; other site 338969010909 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 338969010910 TM-ABC transporter signature motif; other site 338969010911 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 338969010912 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 338969010913 Walker A/P-loop; other site 338969010914 ATP binding site [chemical binding]; other site 338969010915 Q-loop/lid; other site 338969010916 ABC transporter signature motif; other site 338969010917 Walker B; other site 338969010918 D-loop; other site 338969010919 H-loop/switch region; other site 338969010920 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 338969010921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 338969010922 Sporulation related domain; Region: SPOR; pfam05036 338969010923 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 338969010924 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969010925 ligand binding site [chemical binding]; other site 338969010926 flexible hinge region; other site 338969010927 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969010928 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969010929 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969010930 Walker A/P-loop; other site 338969010931 ATP binding site [chemical binding]; other site 338969010932 Q-loop/lid; other site 338969010933 ABC transporter signature motif; other site 338969010934 Walker B; other site 338969010935 D-loop; other site 338969010936 H-loop/switch region; other site 338969010937 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969010938 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969010939 Walker A/P-loop; other site 338969010940 ATP binding site [chemical binding]; other site 338969010941 Q-loop/lid; other site 338969010942 ABC transporter signature motif; other site 338969010943 Walker B; other site 338969010944 D-loop; other site 338969010945 H-loop/switch region; other site 338969010946 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969010947 TM-ABC transporter signature motif; other site 338969010948 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969010949 TM-ABC transporter signature motif; other site 338969010950 transport protein TonB; Provisional; Region: PRK10819 338969010951 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 338969010952 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338969010953 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 338969010954 active site 338969010955 Zn binding site [ion binding]; other site 338969010956 recombination factor protein RarA; Reviewed; Region: PRK13342 338969010957 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 338969010958 Walker A motif; other site 338969010959 ATP binding site [chemical binding]; other site 338969010960 Walker B motif; other site 338969010961 arginine finger; other site 338969010962 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 338969010963 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 338969010964 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 338969010965 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 338969010966 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 338969010967 thioredoxin reductase; Provisional; Region: PRK10262 338969010968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969010969 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969010970 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 338969010971 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 338969010972 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 338969010973 Di-iron ligands [ion binding]; other site 338969010974 Transposase; Region: DDE_Tnp_ISL3; pfam01610 338969010975 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 338969010976 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 338969010977 S-adenosylmethionine binding site [chemical binding]; other site 338969010978 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338969010979 Outer membrane efflux protein; Region: OEP; pfam02321 338969010980 Outer membrane efflux protein; Region: OEP; pfam02321 338969010981 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969010982 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338969010983 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969010984 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338969010985 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338969010986 Walker A/P-loop; other site 338969010987 ATP binding site [chemical binding]; other site 338969010988 Q-loop/lid; other site 338969010989 ABC transporter signature motif; other site 338969010990 Walker B; other site 338969010991 D-loop; other site 338969010992 H-loop/switch region; other site 338969010993 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338969010994 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338969010995 FtsX-like permease family; Region: FtsX; pfam02687 338969010996 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 338969010997 putative acyl-acceptor binding pocket; other site 338969010998 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 338969010999 Predicted GTPase [General function prediction only]; Region: COG0218 338969011000 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 338969011001 G1 box; other site 338969011002 GTP/Mg2+ binding site [chemical binding]; other site 338969011003 Switch I region; other site 338969011004 G2 box; other site 338969011005 G3 box; other site 338969011006 Switch II region; other site 338969011007 G4 box; other site 338969011008 G5 box; other site 338969011009 Cytochrome c553 [Energy production and conversion]; Region: COG2863 338969011010 Cytochrome c; Region: Cytochrom_C; cl11414 338969011011 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338969011012 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011013 putative active site [active] 338969011014 heme pocket [chemical binding]; other site 338969011015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969011016 metal binding site [ion binding]; metal-binding site 338969011017 active site 338969011018 I-site; other site 338969011019 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969011020 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 338969011021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969011022 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 338969011023 NAD(P) binding site [chemical binding]; other site 338969011024 active site 338969011025 ApbE family; Region: ApbE; pfam02424 338969011026 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 338969011027 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 338969011028 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 338969011029 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338969011030 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 338969011031 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338969011032 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338969011033 nitrous-oxide reductase; Validated; Region: PRK02888 338969011034 The C-terminal cupredoxin domain of Nitrous-oxide reductase; Region: N2OR_C; cd04223 338969011035 dimer interface [polypeptide binding]; other site 338969011036 CuA binuclear site [ion binding]; other site 338969011037 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 338969011038 Domain present in carbohydrate binding proteins and sugar hydrolses; Region: CASH; smart00722 338969011039 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 338969011040 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338969011041 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338969011042 Walker A/P-loop; other site 338969011043 ATP binding site [chemical binding]; other site 338969011044 Q-loop/lid; other site 338969011045 ABC transporter signature motif; other site 338969011046 Walker B; other site 338969011047 D-loop; other site 338969011048 H-loop/switch region; other site 338969011049 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 338969011050 NosL; Region: NosL; pfam05573 338969011051 KicB killing factor; Region: KicB; cl11468 338969011052 NosL; Region: NosL; pfam05573 338969011053 NosL; Region: NosL; cl01769 338969011054 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 338969011055 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 338969011056 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969011057 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338969011058 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 338969011059 FAD binding pocket [chemical binding]; other site 338969011060 FAD binding motif [chemical binding]; other site 338969011061 phosphate binding motif [ion binding]; other site 338969011062 beta-alpha-beta structure motif; other site 338969011063 NAD binding pocket [chemical binding]; other site 338969011064 Iron coordination center [ion binding]; other site 338969011065 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 338969011066 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 338969011067 dimer interface [polypeptide binding]; other site 338969011068 PYR/PP interface [polypeptide binding]; other site 338969011069 TPP binding site [chemical binding]; other site 338969011070 substrate binding site [chemical binding]; other site 338969011071 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 338969011072 4Fe-4S binding domain; Region: Fer4_6; pfam12837 338969011073 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 338969011074 TPP-binding site [chemical binding]; other site 338969011075 dimer interface [polypeptide binding]; other site 338969011076 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969011077 EamA-like transporter family; Region: EamA; pfam00892 338969011078 EamA-like transporter family; Region: EamA; pfam00892 338969011079 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 338969011080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 338969011081 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 338969011082 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338969011083 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338969011084 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 338969011085 Walker A motif; other site 338969011086 ATP binding site [chemical binding]; other site 338969011087 Walker B motif; other site 338969011088 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 338969011089 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 338969011090 putative active site [active] 338969011091 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 338969011092 ThiF family; Region: ThiF; pfam00899 338969011093 ATP binding site [chemical binding]; other site 338969011094 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 338969011095 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 338969011096 active site 338969011097 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 338969011098 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 338969011099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969011100 Walker A/P-loop; other site 338969011101 ATP binding site [chemical binding]; other site 338969011102 Q-loop/lid; other site 338969011103 ABC transporter signature motif; other site 338969011104 Walker B; other site 338969011105 D-loop; other site 338969011106 H-loop/switch region; other site 338969011107 TOBE domain; Region: TOBE_2; pfam08402 338969011108 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 338969011109 dimer interface [polypeptide binding]; other site 338969011110 conserved gate region; other site 338969011111 putative PBP binding loops; other site 338969011112 ABC-ATPase subunit interface; other site 338969011113 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 338969011114 dimer interface [polypeptide binding]; other site 338969011115 conserved gate region; other site 338969011116 putative PBP binding loops; other site 338969011117 ABC-ATPase subunit interface; other site 338969011118 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 338969011119 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; cl19124 338969011120 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 338969011121 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 338969011122 non-specific DNA binding site [nucleotide binding]; other site 338969011123 salt bridge; other site 338969011124 sequence-specific DNA binding site [nucleotide binding]; other site 338969011125 Cupin domain; Region: Cupin_2; pfam07883 338969011126 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 338969011127 tetrameric interface [polypeptide binding]; other site 338969011128 NAD binding site [chemical binding]; other site 338969011129 catalytic residues [active] 338969011130 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 338969011131 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969011132 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 338969011133 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969011134 putative ligand binding site [chemical binding]; other site 338969011135 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 338969011136 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338969011137 Walker A/P-loop; other site 338969011138 ATP binding site [chemical binding]; other site 338969011139 Q-loop/lid; other site 338969011140 ABC transporter signature motif; other site 338969011141 Walker B; other site 338969011142 D-loop; other site 338969011143 H-loop/switch region; other site 338969011144 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 338969011145 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338969011146 FtsX-like permease family; Region: FtsX; pfam02687 338969011147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 338969011148 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 338969011149 DHH family; Region: DHH; pfam01368 338969011150 DHHA1 domain; Region: DHHA1; pfam02272 338969011151 Sel1-like repeats; Region: SEL1; smart00671 338969011152 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 338969011153 Sel1 repeat; Region: Sel1; pfam08238 338969011154 Sel1-like repeats; Region: SEL1; smart00671 338969011155 Sel1-like repeats; Region: SEL1; smart00671 338969011156 Sel1-like repeats; Region: SEL1; smart00671 338969011157 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 338969011158 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338969011159 Walker A motif; other site 338969011160 ATP binding site [chemical binding]; other site 338969011161 Walker B motif; other site 338969011162 arginine finger; other site 338969011163 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 338969011164 Walker A motif; other site 338969011165 ATP binding site [chemical binding]; other site 338969011166 Walker B motif; other site 338969011167 arginine finger; other site 338969011168 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 338969011169 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 338969011170 active site 338969011171 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969011172 EamA-like transporter family; Region: EamA; pfam00892 338969011173 EamA-like transporter family; Region: EamA; pfam00892 338969011174 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 338969011175 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 338969011176 Peptidase family M50; Region: Peptidase_M50; pfam02163 338969011177 active site 338969011178 putative substrate binding region [chemical binding]; other site 338969011179 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 338969011180 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 338969011181 active site 338969011182 HIGH motif; other site 338969011183 dimer interface [polypeptide binding]; other site 338969011184 KMSKS motif; other site 338969011185 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 338969011186 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338969011187 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 338969011188 dimerization interface [polypeptide binding]; other site 338969011189 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969011190 metal binding site [ion binding]; metal-binding site 338969011191 active site 338969011192 I-site; other site 338969011193 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 338969011194 seryl-tRNA synthetase; Provisional; Region: PRK05431 338969011195 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 338969011196 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 338969011197 dimer interface [polypeptide binding]; other site 338969011198 active site 338969011199 motif 1; other site 338969011200 motif 2; other site 338969011201 motif 3; other site 338969011202 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 338969011203 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 338969011204 Walker A/P-loop; other site 338969011205 ATP binding site [chemical binding]; other site 338969011206 Q-loop/lid; other site 338969011207 ABC transporter signature motif; other site 338969011208 Walker B; other site 338969011209 D-loop; other site 338969011210 H-loop/switch region; other site 338969011211 thiamine ABC transporter, permease protein; Region: thiP; TIGR01253 338969011212 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 338969011213 dimer interface [polypeptide binding]; other site 338969011214 conserved gate region; other site 338969011215 putative PBP binding loops; other site 338969011216 ABC-ATPase subunit interface; other site 338969011217 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 338969011218 dimer interface [polypeptide binding]; other site 338969011219 conserved gate region; other site 338969011220 putative PBP binding loops; other site 338969011221 ABC-ATPase subunit interface; other site 338969011222 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 338969011223 AAA domain; Region: AAA_28; pfam13521 338969011224 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 338969011225 Fe-S cluster binding site [ion binding]; other site 338969011226 substrate binding site [chemical binding]; other site 338969011227 catalytic site [active] 338969011228 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 338969011229 CHASE domain; Region: CHASE; pfam03924 338969011230 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011231 putative active site [active] 338969011232 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 338969011233 heme pocket [chemical binding]; other site 338969011234 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011235 putative active site [active] 338969011236 heme pocket [chemical binding]; other site 338969011237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969011238 metal binding site [ion binding]; metal-binding site 338969011239 active site 338969011240 I-site; other site 338969011241 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969011242 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 338969011243 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 338969011244 substrate binding pocket [chemical binding]; other site 338969011245 membrane-bound complex binding site; other site 338969011246 hinge residues; other site 338969011247 hypothetical protein; Reviewed; Region: PRK00024 338969011248 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338969011249 MPN+ (JAMM) motif; other site 338969011250 Zinc-binding site [ion binding]; other site 338969011251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 338969011252 Smr domain; Region: Smr; pfam01713 338969011253 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 338969011254 apolar tunnel; other site 338969011255 heme binding site [chemical binding]; other site 338969011256 dimerization interface [polypeptide binding]; other site 338969011257 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 338969011258 FtsX-like permease family; Region: FtsX; pfam02687 338969011259 FtsX-like permease family; Region: FtsX; pfam02687 338969011260 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 338969011261 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 338969011262 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 338969011263 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 338969011264 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; cl19102 338969011265 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 338969011266 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 338969011267 molybdopterin cofactor binding site; other site 338969011268 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 338969011269 molybdopterin cofactor binding site; other site 338969011270 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 338969011271 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 338969011272 4Fe-4S binding domain; Region: Fer4; pfam00037 338969011273 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338969011274 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 338969011275 4Fe-4S binding domain; Region: Fer4; pfam00037 338969011276 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 338969011277 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; cl19102 338969011278 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 338969011279 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 338969011280 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 338969011281 glutathione s-transferase; Provisional; Region: PTZ00057 338969011282 GSH binding site (G-site) [chemical binding]; other site 338969011283 C-terminal domain interface [polypeptide binding]; other site 338969011284 dimer interface [polypeptide binding]; other site 338969011285 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 338969011286 N-terminal domain interface [polypeptide binding]; other site 338969011287 dimer interface [polypeptide binding]; other site 338969011288 substrate binding pocket (H-site) [chemical binding]; other site 338969011289 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 338969011290 proposed catalytic triad [active] 338969011291 active site nucleophile [active] 338969011292 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 338969011293 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 338969011294 catalytic loop [active] 338969011295 iron binding site [ion binding]; other site 338969011296 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 338969011297 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 338969011298 [4Fe-4S] binding site [ion binding]; other site 338969011299 molybdopterin cofactor binding site; other site 338969011300 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 338969011301 molybdopterin cofactor binding site; other site 338969011302 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 338969011303 putative dimer interface [polypeptide binding]; other site 338969011304 [2Fe-2S] cluster binding site [ion binding]; other site 338969011305 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338969011306 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 338969011307 SLBB domain; Region: SLBB; pfam10531 338969011308 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 338969011309 FecR protein; Region: FecR; pfam04773 338969011310 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 338969011311 antiporter inner membrane protein; Provisional; Region: PRK11670 338969011312 Domain of unknown function DUF59; Region: DUF59; pfam01883 338969011313 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 338969011314 Walker A motif; other site 338969011315 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 338969011316 active site 338969011317 nucleophile elbow; other site 338969011318 CsbD-like; Region: CsbD; pfam05532 338969011319 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 338969011320 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338969011321 active site 338969011322 nucleotide binding site [chemical binding]; other site 338969011323 HIGH motif; other site 338969011324 KMSKS motif; other site 338969011325 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 338969011326 tRNA binding surface [nucleotide binding]; other site 338969011327 anticodon binding site; other site 338969011328 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 338969011329 dimer interface [polypeptide binding]; other site 338969011330 putative tRNA-binding site [nucleotide binding]; other site 338969011331 hydrogenase 4 subunit B; Validated; Region: PRK06521 338969011332 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338969011333 NADH dehydrogenase; Region: NADHdh; cl00469 338969011334 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 338969011335 hydrogenase 4 subunit F; Validated; Region: PRK06458 338969011336 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338969011337 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl19197 338969011338 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 338969011339 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl19174 338969011340 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; cl19102 338969011341 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 338969011342 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011343 PAS domain; Region: PAS_9; pfam13426 338969011344 putative active site [active] 338969011345 heme pocket [chemical binding]; other site 338969011346 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 338969011347 DNA binding residues [nucleotide binding] 338969011348 dimerization interface [polypeptide binding]; other site 338969011349 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 338969011350 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 338969011351 active site 338969011352 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 338969011353 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969011354 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 338969011355 acyl-activating enzyme (AAE) consensus motif; other site 338969011356 acyl-activating enzyme (AAE) consensus motif; other site 338969011357 putative AMP binding site [chemical binding]; other site 338969011358 putative active site [active] 338969011359 putative CoA binding site [chemical binding]; other site 338969011360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969011361 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 338969011362 NAD(P) binding site [chemical binding]; other site 338969011363 active site 338969011364 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338969011365 HAMP domain; Region: HAMP; pfam00672 338969011366 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969011367 dimer interface [polypeptide binding]; other site 338969011368 putative CheW interface [polypeptide binding]; other site 338969011369 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 338969011370 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl19197 338969011371 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 338969011372 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 338969011373 hydrogenase 4 subunit F; Validated; Region: PRK06458 338969011374 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338969011375 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 338969011376 NADH dehydrogenase; Region: NADHdh; cl00469 338969011377 hydrogenase 4 subunit B; Validated; Region: PRK06521 338969011378 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338969011379 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 338969011380 trimer interface [polypeptide binding]; other site 338969011381 active site 338969011382 guanine deaminase; Provisional; Region: PRK09228 338969011383 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 338969011384 active site 338969011385 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 338969011386 putative ligand binding site [chemical binding]; other site 338969011387 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 338969011388 active site 338969011389 purine riboside binding site [chemical binding]; other site 338969011390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969011391 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338969011392 NAD(P) binding site [chemical binding]; other site 338969011393 active site 338969011394 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 338969011395 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 338969011396 catalytic loop [active] 338969011397 iron binding site [ion binding]; other site 338969011398 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 338969011399 FAD binding pocket [chemical binding]; other site 338969011400 FAD binding motif [chemical binding]; other site 338969011401 phosphate binding motif [ion binding]; other site 338969011402 beta-alpha-beta structure motif; other site 338969011403 NAD binding pocket [chemical binding]; other site 338969011404 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 338969011405 epoxyqueuosine reductase; Region: TIGR00276 338969011406 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 338969011407 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 338969011408 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 338969011409 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 338969011410 AMIN domain; Region: AMIN; pfam11741 338969011411 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 338969011412 active site 338969011413 metal binding site [ion binding]; metal-binding site 338969011414 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 338969011415 Iron permease FTR1 family; Region: FTR1; cl00475 338969011416 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 338969011417 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 338969011418 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 338969011419 ATP binding site [chemical binding]; other site 338969011420 Mg2+ binding site [ion binding]; other site 338969011421 G-X-G motif; other site 338969011422 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 338969011423 ATP binding site [chemical binding]; other site 338969011424 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 338969011425 multidrug efflux protein; Reviewed; Region: PRK01766 338969011426 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 338969011427 cation binding site [ion binding]; other site 338969011428 salicylate hydroxylase; Provisional; Region: PRK08163 338969011429 Squalene epoxidase; Region: SE; cl17314 338969011430 short chain dehydrogenase; Provisional; Region: PRK07024 338969011431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969011432 NAD(P) binding site [chemical binding]; other site 338969011433 active site 338969011434 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 338969011435 aminodeoxychorismate synthase; Provisional; Region: PRK07508 338969011436 chorismate binding enzyme; Region: Chorismate_bind; cl10555 338969011437 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 338969011438 substrate-cofactor binding pocket; other site 338969011439 homodimer interface [polypeptide binding]; other site 338969011440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969011441 catalytic residue [active] 338969011442 AAA domain; Region: AAA_32; pfam13654 338969011443 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338969011444 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 338969011445 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 338969011446 RDD family; Region: RDD; pfam06271 338969011447 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 338969011448 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 338969011449 RNA polymerase factor sigma-70; Validated; Region: PRK09047 338969011450 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 338969011451 DNA binding residues [nucleotide binding] 338969011452 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 338969011453 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338969011454 PYR/PP interface [polypeptide binding]; other site 338969011455 dimer interface [polypeptide binding]; other site 338969011456 TPP binding site [chemical binding]; other site 338969011457 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338969011458 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 338969011459 TPP-binding site [chemical binding]; other site 338969011460 dimer interface [polypeptide binding]; other site 338969011461 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 338969011462 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 338969011463 putative valine binding site [chemical binding]; other site 338969011464 dimer interface [polypeptide binding]; other site 338969011465 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 338969011466 ketol-acid reductoisomerase; Provisional; Region: PRK05479 338969011467 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 338969011468 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 338969011469 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 338969011470 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 338969011471 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969011472 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 338969011473 ligand binding site [chemical binding]; other site 338969011474 flexible hinge region; other site 338969011475 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969011476 putative switch regulator; other site 338969011477 non-specific DNA interactions [nucleotide binding]; other site 338969011478 DNA binding site [nucleotide binding] 338969011479 sequence specific DNA binding site [nucleotide binding]; other site 338969011480 putative cAMP binding site [chemical binding]; other site 338969011481 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 338969011482 Phosphotransferase enzyme family; Region: APH; pfam01636 338969011483 putative active site [active] 338969011484 putative substrate binding site [chemical binding]; other site 338969011485 ATP binding site [chemical binding]; other site 338969011486 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969011487 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969011488 active site 338969011489 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 338969011490 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 338969011491 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969011492 Zn2+ binding site [ion binding]; other site 338969011493 Mg2+ binding site [ion binding]; other site 338969011494 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 338969011495 TPR motif; other site 338969011496 binding surface 338969011497 TPR repeat; Region: TPR_11; pfam13414 338969011498 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338969011499 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 338969011500 Walker A motif; other site 338969011501 ATP binding site [chemical binding]; other site 338969011502 Walker B motif; other site 338969011503 arginine finger; other site 338969011504 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 338969011505 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 338969011506 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338969011507 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 338969011508 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 338969011509 legume lectins; Region: lectin_L-type; cl14058 338969011510 homotetramer interaction site [polypeptide binding]; other site 338969011511 homodimer interaction site [polypeptide binding]; other site 338969011512 carbohydrate binding site [chemical binding]; other site 338969011513 metal binding site [ion binding]; metal-binding site 338969011514 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 338969011515 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 338969011516 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338969011517 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 338969011518 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 338969011519 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 338969011520 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338969011521 signal recognition particle protein; Provisional; Region: PRK10867 338969011522 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 338969011523 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 338969011524 P loop; other site 338969011525 GTP binding site [chemical binding]; other site 338969011526 Signal peptide binding domain; Region: SRP_SPB; pfam02978 338969011527 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 338969011528 CrcB-like protein; Region: CRCB; cl09114 338969011529 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338969011530 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011531 putative active site [active] 338969011532 heme pocket [chemical binding]; other site 338969011533 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 338969011534 dimer interface [polypeptide binding]; other site 338969011535 phosphorylation site [posttranslational modification] 338969011536 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 338969011537 ATP binding site [chemical binding]; other site 338969011538 Mg2+ binding site [ion binding]; other site 338969011539 G-X-G motif; other site 338969011540 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338969011541 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 338969011542 active site 338969011543 phosphorylation site [posttranslational modification] 338969011544 intermolecular recognition site; other site 338969011545 dimerization interface [polypeptide binding]; other site 338969011546 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 338969011547 Walker A motif; other site 338969011548 ATP binding site [chemical binding]; other site 338969011549 Walker B motif; other site 338969011550 arginine finger; other site 338969011551 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969011552 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 338969011553 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 338969011554 amidase catalytic site [active] 338969011555 Zn binding residues [ion binding]; other site 338969011556 substrate binding site [chemical binding]; other site 338969011557 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 338969011558 ATP cone domain; Region: ATP-cone; pfam03477 338969011559 Class I ribonucleotide reductase; Region: RNR_I; cd01679 338969011560 active site 338969011561 dimer interface [polypeptide binding]; other site 338969011562 catalytic residues [active] 338969011563 effector binding site; other site 338969011564 R2 peptide binding site; other site 338969011565 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 338969011566 dimer interface [polypeptide binding]; other site 338969011567 putative radical transfer pathway; other site 338969011568 diiron center [ion binding]; other site 338969011569 tyrosyl radical; other site 338969011570 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 338969011571 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 338969011572 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 338969011573 Methyltransferase domain; Region: Methyltransf_23; pfam13489 338969011574 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 338969011575 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338969011576 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 338969011577 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 338969011578 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 338969011579 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 338969011580 carboxyltransferase (CT) interaction site; other site 338969011581 biotinylation site [posttranslational modification]; other site 338969011582 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 338969011583 catalytic residues [active] 338969011584 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 338969011585 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338969011586 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338969011587 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338969011588 lipase chaperone; Provisional; Region: PRK01294 338969011589 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 338969011590 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 338969011591 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338969011592 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338969011593 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 338969011594 Walker A motif; other site 338969011595 ATP binding site [chemical binding]; other site 338969011596 Walker B motif; other site 338969011597 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 338969011598 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338969011599 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338969011600 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 338969011601 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338969011602 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 338969011603 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 338969011604 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 338969011605 FeS/SAM binding site; other site 338969011606 TRAM domain; Region: TRAM; pfam01938 338969011607 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 338969011608 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 338969011609 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 338969011610 diguanylate cyclase; Provisional; Region: PRK09894 338969011611 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011612 putative active site [active] 338969011613 heme pocket [chemical binding]; other site 338969011614 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969011615 metal binding site [ion binding]; metal-binding site 338969011616 active site 338969011617 I-site; other site 338969011618 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969011619 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 338969011620 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 338969011621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 338969011622 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 338969011623 Histidine kinase; Region: HisKA_3; pfam07730 338969011624 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 338969011625 ATP binding site [chemical binding]; other site 338969011626 Mg2+ binding site [ion binding]; other site 338969011627 G-X-G motif; other site 338969011628 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969011629 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 338969011630 active site 338969011631 phosphorylation site [posttranslational modification] 338969011632 intermolecular recognition site; other site 338969011633 dimerization interface [polypeptide binding]; other site 338969011634 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 338969011635 DNA binding residues [nucleotide binding] 338969011636 dimerization interface [polypeptide binding]; other site 338969011637 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 338969011638 Esterase/lipase [General function prediction only]; Region: COG1647 338969011639 UreD urease accessory protein; Region: UreD; pfam01774 338969011640 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 338969011641 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969011642 Walker A/P-loop; other site 338969011643 ATP binding site [chemical binding]; other site 338969011644 Q-loop/lid; other site 338969011645 ABC transporter signature motif; other site 338969011646 Walker B; other site 338969011647 D-loop; other site 338969011648 H-loop/switch region; other site 338969011649 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 338969011650 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969011651 Walker A/P-loop; other site 338969011652 ATP binding site [chemical binding]; other site 338969011653 Q-loop/lid; other site 338969011654 ABC transporter signature motif; other site 338969011655 Walker B; other site 338969011656 D-loop; other site 338969011657 H-loop/switch region; other site 338969011658 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969011659 TM-ABC transporter signature motif; other site 338969011660 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969011661 TM-ABC transporter signature motif; other site 338969011662 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 338969011663 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969011664 putative ligand binding site [chemical binding]; other site 338969011665 AAA domain; Region: AAA_22; pfam13401 338969011666 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 338969011667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969011668 Walker A/P-loop; other site 338969011669 ATP binding site [chemical binding]; other site 338969011670 Q-loop/lid; other site 338969011671 ABC transporter signature motif; other site 338969011672 Walker B; other site 338969011673 D-loop; other site 338969011674 H-loop/switch region; other site 338969011675 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 338969011676 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338969011677 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 338969011678 non-specific DNA binding site [nucleotide binding]; other site 338969011679 salt bridge; other site 338969011680 sequence-specific DNA binding site [nucleotide binding]; other site 338969011681 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 338969011682 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 338969011683 OsmC-like protein; Region: OsmC; cl00767 338969011684 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 338969011685 Uncharacterized conserved protein [Function unknown]; Region: COG2128 338969011686 Cupin; Region: Cupin_6; pfam12852 338969011687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969011688 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 338969011689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969011690 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969011691 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 338969011692 substrate binding pocket [chemical binding]; other site 338969011693 membrane-bound complex binding site; other site 338969011694 hinge residues; other site 338969011695 PAS fold; Region: PAS_4; pfam08448 338969011696 GAF domain; Region: GAF_2; pfam13185 338969011697 GAF domain; Region: GAF_2; pfam13185 338969011698 PAS domain S-box; Region: sensory_box; TIGR00229 338969011699 PAS domain; Region: PAS; smart00091 338969011700 GAF domain; Region: GAF_2; pfam13185 338969011701 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 338969011702 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969011703 Zn2+ binding site [ion binding]; other site 338969011704 Mg2+ binding site [ion binding]; other site 338969011705 Ubiquitin-like proteins; Region: UBQ; cl00155 338969011706 charged pocket; other site 338969011707 hydrophobic patch; other site 338969011708 Fungal domain of unknown function (DUF1750); Region: SWI-SNF_Ssr4; pfam08549 338969011709 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338969011710 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338969011711 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011712 putative active site [active] 338969011713 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 338969011714 heme pocket [chemical binding]; other site 338969011715 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011716 putative active site [active] 338969011717 heme pocket [chemical binding]; other site 338969011718 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969011719 metal binding site [ion binding]; metal-binding site 338969011720 active site 338969011721 I-site; other site 338969011722 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969011723 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 338969011724 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 338969011725 N-terminal plug; other site 338969011726 ligand-binding site [chemical binding]; other site 338969011727 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969011728 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 338969011729 active site 338969011730 phosphorylation site [posttranslational modification] 338969011731 intermolecular recognition site; other site 338969011732 dimerization interface [polypeptide binding]; other site 338969011733 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 338969011734 DNA binding residues [nucleotide binding] 338969011735 dimerization interface [polypeptide binding]; other site 338969011736 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 338969011737 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 338969011738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969011739 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 338969011740 dimer interface [polypeptide binding]; other site 338969011741 phosphorylation site [posttranslational modification] 338969011742 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 338969011743 ATP binding site [chemical binding]; other site 338969011744 Mg2+ binding site [ion binding]; other site 338969011745 G-X-G motif; other site 338969011746 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969011747 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 338969011748 active site 338969011749 phosphorylation site [posttranslational modification] 338969011750 intermolecular recognition site; other site 338969011751 dimerization interface [polypeptide binding]; other site 338969011752 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 338969011753 alpha-gamma subunit interface [polypeptide binding]; other site 338969011754 beta-gamma subunit interface [polypeptide binding]; other site 338969011755 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 338969011756 gamma-beta subunit interface [polypeptide binding]; other site 338969011757 alpha-beta subunit interface [polypeptide binding]; other site 338969011758 LysE type translocator; Region: LysE; cl00565 338969011759 urease subunit alpha; Reviewed; Region: ureC; PRK13207 338969011760 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 338969011761 subunit interactions [polypeptide binding]; other site 338969011762 active site 338969011763 flap region; other site 338969011764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 338969011765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969011766 Coenzyme A binding pocket [chemical binding]; other site 338969011767 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 338969011768 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 338969011769 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 338969011770 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 338969011771 dimer interface [polypeptide binding]; other site 338969011772 catalytic residues [active] 338969011773 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 338969011774 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 338969011775 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 338969011776 catalytic nucleophile [active] 338969011777 Low molecular weight phosphatase family; Region: LMWPc; cd00115 338969011778 active site 338969011779 RNB domain; Region: RNB; pfam00773 338969011780 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 338969011781 TonB C terminal; Region: TonB_2; pfam13103 338969011782 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 338969011783 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 338969011784 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 338969011785 NAD(P) binding pocket [chemical binding]; other site 338969011786 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 338969011787 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 338969011788 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 338969011789 S-adenosylmethionine binding site [chemical binding]; other site 338969011790 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 338969011791 active site 338969011792 putative DNA-binding cleft [nucleotide binding]; other site 338969011793 dimer interface [polypeptide binding]; other site 338969011794 Transglycosylase; Region: Transgly; cl19357 338969011795 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 338969011796 cell division protein FtsZ; Validated; Region: PRK09330 338969011797 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 338969011798 nucleotide binding site [chemical binding]; other site 338969011799 SulA interaction site; other site 338969011800 cell division protein FtsA; Region: ftsA; TIGR01174 338969011801 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 338969011802 nucleotide binding site [chemical binding]; other site 338969011803 Cell division protein FtsA; Region: FtsA; pfam14450 338969011804 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 338969011805 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 338969011806 Cell division protein FtsQ; Region: FtsQ; pfam03799 338969011807 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 338969011808 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 338969011809 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969011810 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 338969011811 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338969011812 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338969011813 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338969011814 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 338969011815 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 338969011816 active site 338969011817 homodimer interface [polypeptide binding]; other site 338969011818 cell division protein FtsW; Region: ftsW; TIGR02614 338969011819 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 338969011820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969011821 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338969011822 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338969011823 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 338969011824 Mg++ binding site [ion binding]; other site 338969011825 putative catalytic motif [active] 338969011826 putative substrate binding site [chemical binding]; other site 338969011827 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338969011828 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 338969011829 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338969011830 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338969011831 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 338969011832 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338969011833 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338969011834 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 338969011835 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 338969011836 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 338969011837 Cell division protein FtsL; Region: FtsL; cl11433 338969011838 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 338969011839 cell division protein MraZ; Reviewed; Region: PRK00326 338969011840 MraZ protein; Region: MraZ; pfam02381 338969011841 MraZ protein; Region: MraZ; pfam02381 338969011842 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 338969011843 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 338969011844 Walker A motif; other site 338969011845 ATP binding site [chemical binding]; other site 338969011846 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 338969011847 Walker B motif; other site 338969011848 arginine finger; other site 338969011849 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 338969011850 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 338969011851 active site 338969011852 HslU subunit interaction site [polypeptide binding]; other site 338969011853 STAS domain; Region: STAS_2; pfam13466 338969011854 Telomere-binding protein beta subunit (TEBP beta); Region: TEBP_beta; pfam07404 338969011855 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 338969011856 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 338969011857 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 338969011858 P-loop, Walker A motif; other site 338969011859 Base recognition motif; other site 338969011860 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 338969011861 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 338969011862 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 338969011863 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 338969011864 putative RNA binding site [nucleotide binding]; other site 338969011865 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 338969011866 S-adenosylmethionine binding site [chemical binding]; other site 338969011867 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 338969011868 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 338969011869 active site 338969011870 DNA binding site [nucleotide binding] 338969011871 Int/Topo IB signature motif; other site 338969011872 Protein of unknown function, DUF484; Region: DUF484; cl17449 338969011873 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 338969011874 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 338969011875 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 338969011876 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 338969011877 homodimer interface [polypeptide binding]; other site 338969011878 chemical substrate binding site [chemical binding]; other site 338969011879 oligomer interface [polypeptide binding]; other site 338969011880 metal binding site [ion binding]; metal-binding site 338969011881 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 338969011882 nudix motif; other site 338969011883 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338969011884 Cache domain; Region: Cache_1; pfam02743 338969011885 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338969011886 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 338969011887 dimerization interface [polypeptide binding]; other site 338969011888 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969011889 dimer interface [polypeptide binding]; other site 338969011890 putative CheW interface [polypeptide binding]; other site 338969011891 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 338969011892 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338969011893 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 338969011894 active site 338969011895 phosphorylation site [posttranslational modification] 338969011896 intermolecular recognition site; other site 338969011897 dimerization interface [polypeptide binding]; other site 338969011898 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 338969011899 Walker A motif; other site 338969011900 ATP binding site [chemical binding]; other site 338969011901 Walker B motif; other site 338969011902 arginine finger; other site 338969011903 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969011904 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 338969011905 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 338969011906 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 338969011907 dimer interface [polypeptide binding]; other site 338969011908 phosphorylation site [posttranslational modification] 338969011909 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 338969011910 ATP binding site [chemical binding]; other site 338969011911 Mg2+ binding site [ion binding]; other site 338969011912 G-X-G motif; other site 338969011913 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 338969011914 Glucose-regulated metallo-peptidase M90; Region: Peptidase_M90; pfam06167 338969011915 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 338969011916 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 338969011917 RNA binding surface [nucleotide binding]; other site 338969011918 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 338969011919 active site 338969011920 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 338969011921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969011922 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 338969011923 putative dimerization interface [polypeptide binding]; other site 338969011924 Rrf2 family protein; Region: rrf2_super; TIGR00738 338969011925 Transcriptional regulator; Region: Rrf2; cl17282 338969011926 cysteine synthase; Region: PLN02565 338969011927 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 338969011928 dimer interface [polypeptide binding]; other site 338969011929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969011930 catalytic residue [active] 338969011931 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969011932 LysE type translocator; Region: LysE; cl00565 338969011933 heat shock protein HtpX; Provisional; Region: PRK05457 338969011934 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 338969011935 active site 338969011936 substrate binding pocket [chemical binding]; other site 338969011937 dimer interface [polypeptide binding]; other site 338969011938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969011939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969011940 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 338969011941 dimerization interface [polypeptide binding]; other site 338969011942 Domain of unknown function (DUF4440); Region: DUF4440; pfam14534 338969011943 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 338969011944 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 338969011945 conserved cys residue [active] 338969011946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969011947 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969011948 Domain of unknown function DUF302; Region: DUF302; cl01364 338969011949 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 338969011950 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 338969011951 active site 338969011952 catalytic tetrad [active] 338969011953 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 338969011954 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 338969011955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969011956 metal binding site [ion binding]; metal-binding site 338969011957 active site 338969011958 I-site; other site 338969011959 TfoX N-terminal domain; Region: TfoX_N; pfam04993 338969011960 TfoX C-terminal domain; Region: TfoX_C; pfam04994 338969011961 Vacuolating cyotoxin; Region: VacA; pfam02691 338969011962 FOG: CBS domain [General function prediction only]; Region: COG0517 338969011963 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 338969011964 FOG: CBS domain [General function prediction only]; Region: COG0517 338969011965 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 338969011966 PAS domain; Region: PAS_9; pfam13426 338969011967 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969011968 putative active site [active] 338969011969 heme pocket [chemical binding]; other site 338969011970 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969011971 metal binding site [ion binding]; metal-binding site 338969011972 active site 338969011973 I-site; other site 338969011974 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 338969011975 flap endonuclease-like protein; Provisional; Region: PRK09482 338969011976 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 338969011977 active site 338969011978 metal binding site 1 [ion binding]; metal-binding site 338969011979 putative 5' ssDNA interaction site; other site 338969011980 metal binding site 3; metal-binding site 338969011981 metal binding site 2 [ion binding]; metal-binding site 338969011982 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 338969011983 putative DNA binding site [nucleotide binding]; other site 338969011984 putative metal binding site [ion binding]; other site 338969011985 SH3 domain-binding protein 5 (SH3BP5); Region: SH3BP5; pfam05276 338969011986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969011987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969011988 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 338969011989 putative dimerization interface [polypeptide binding]; other site 338969011990 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 338969011991 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 338969011992 DctM-like transporters; Region: DctM; pfam06808 338969011993 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 338969011994 Uncharacterized conserved protein [Function unknown]; Region: COG3777 338969011995 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 338969011996 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 338969011997 active site 2 [active] 338969011998 active site 1 [active] 338969011999 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969012000 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 338969012001 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 338969012002 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 338969012003 tetramer interface [polypeptide binding]; other site 338969012004 active site 338969012005 tricarballylate dehydrogenase; Validated; Region: PRK08274 338969012006 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 338969012007 tricarballylate utilization protein B; Provisional; Region: PRK15033 338969012008 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 338969012009 PrpF protein; Region: PrpF; cl19418 338969012010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969012011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969012012 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 338969012013 dimerization interface [polypeptide binding]; other site 338969012014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969012015 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338969012016 NAD(P) binding site [chemical binding]; other site 338969012017 active site 338969012018 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338969012019 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 338969012020 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 338969012021 Walker A/P-loop; other site 338969012022 ATP binding site [chemical binding]; other site 338969012023 Q-loop/lid; other site 338969012024 ABC transporter signature motif; other site 338969012025 Walker B; other site 338969012026 D-loop; other site 338969012027 H-loop/switch region; other site 338969012028 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 338969012029 Predicted flavoprotein [General function prediction only]; Region: COG0431 338969012030 enoyl-CoA hydratase; Provisional; Region: PRK08259 338969012031 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 338969012032 substrate binding site [chemical binding]; other site 338969012033 oxyanion hole (OAH) forming residues; other site 338969012034 trimer interface [polypeptide binding]; other site 338969012035 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969012036 TM-ABC transporter signature motif; other site 338969012037 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969012038 TM-ABC transporter signature motif; other site 338969012039 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969012040 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969012041 Walker A/P-loop; other site 338969012042 ATP binding site [chemical binding]; other site 338969012043 Q-loop/lid; other site 338969012044 ABC transporter signature motif; other site 338969012045 Walker B; other site 338969012046 D-loop; other site 338969012047 H-loop/switch region; other site 338969012048 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969012049 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969012050 Walker A/P-loop; other site 338969012051 ATP binding site [chemical binding]; other site 338969012052 Q-loop/lid; other site 338969012053 ABC transporter signature motif; other site 338969012054 Walker B; other site 338969012055 D-loop; other site 338969012056 H-loop/switch region; other site 338969012057 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 338969012058 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 338969012059 acyl-activating enzyme (AAE) consensus motif; other site 338969012060 putative AMP binding site [chemical binding]; other site 338969012061 putative active site [active] 338969012062 putative CoA binding site [chemical binding]; other site 338969012063 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 338969012064 putative ligand binding site [chemical binding]; other site 338969012065 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 338969012066 CoenzymeA binding site [chemical binding]; other site 338969012067 subunit interaction site [polypeptide binding]; other site 338969012068 PHB binding site; other site 338969012069 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969012070 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969012071 active site 338969012072 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 338969012073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969012074 NAD(P) binding site [chemical binding]; other site 338969012075 active site 338969012076 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969012077 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969012078 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 338969012079 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338969012080 PYR/PP interface [polypeptide binding]; other site 338969012081 dimer interface [polypeptide binding]; other site 338969012082 TPP binding site [chemical binding]; other site 338969012083 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338969012084 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 338969012085 TPP-binding site [chemical binding]; other site 338969012086 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 338969012087 Predicted oxidoreductase [General function prediction only]; Region: COG3573 338969012088 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969012089 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 338969012090 ligand binding site [chemical binding]; other site 338969012091 flexible hinge region; other site 338969012092 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969012093 putative switch regulator; other site 338969012094 non-specific DNA interactions [nucleotide binding]; other site 338969012095 DNA binding site [nucleotide binding] 338969012096 sequence specific DNA binding site [nucleotide binding]; other site 338969012097 putative cAMP binding site [chemical binding]; other site 338969012098 enoyl-CoA hydratase; Provisional; Region: PRK06688 338969012099 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 338969012100 substrate binding site [chemical binding]; other site 338969012101 oxyanion hole (OAH) forming residues; other site 338969012102 trimer interface [polypeptide binding]; other site 338969012103 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 338969012104 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 338969012105 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 338969012106 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 338969012107 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 338969012108 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 338969012109 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 338969012110 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 338969012111 S-adenosylmethionine binding site [chemical binding]; other site 338969012112 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 338969012113 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969012114 dimer interface [polypeptide binding]; other site 338969012115 active site 338969012116 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 338969012117 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 338969012118 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 338969012119 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 338969012120 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 338969012121 substrate binding site [chemical binding]; other site 338969012122 oxyanion hole (OAH) forming residues; other site 338969012123 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 338969012124 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 338969012125 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 338969012126 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969012127 active site 338969012128 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 338969012129 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969012130 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969012131 division inhibitor protein; Provisional; Region: slmA; PRK09480 338969012132 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969012133 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 338969012134 HAMP domain; Region: HAMP; pfam00672 338969012135 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 338969012136 dimer interface [polypeptide binding]; other site 338969012137 phosphorylation site [posttranslational modification] 338969012138 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 338969012139 ATP binding site [chemical binding]; other site 338969012140 Mg2+ binding site [ion binding]; other site 338969012141 G-X-G motif; other site 338969012142 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969012143 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 338969012144 active site 338969012145 phosphorylation site [posttranslational modification] 338969012146 intermolecular recognition site; other site 338969012147 dimerization interface [polypeptide binding]; other site 338969012148 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 338969012149 DNA binding site [nucleotide binding] 338969012150 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 338969012151 feedback inhibition sensing region; other site 338969012152 homohexameric interface [polypeptide binding]; other site 338969012153 nucleotide binding site [chemical binding]; other site 338969012154 N-acetyl-L-glutamate binding site [chemical binding]; other site 338969012155 H-NS histone family; Region: Histone_HNS; pfam00816 338969012156 Domain in histone-like proteins of HNS family; Region: HNS; cl19571 338969012157 short chain dehydrogenase; Provisional; Region: PRK07201 338969012158 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 338969012159 putative NAD(P) binding site [chemical binding]; other site 338969012160 active site 338969012161 putative substrate binding site [chemical binding]; other site 338969012162 classical (c) SDRs; Region: SDR_c; cd05233 338969012163 NAD(P) binding site [chemical binding]; other site 338969012164 active site 338969012165 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 338969012166 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 338969012167 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 338969012168 active site 338969012169 nucleophile elbow; other site 338969012170 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969012171 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969012172 Bacterial transcriptional repressor; Region: TetR; pfam13972 338969012173 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 338969012174 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 338969012175 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 338969012176 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 338969012177 acyl-CoA binding pocket [chemical binding]; other site 338969012178 CoA binding site [chemical binding]; other site 338969012179 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 338969012180 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 338969012181 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 338969012182 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 338969012183 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969012184 acyl-activating enzyme (AAE) consensus motif; other site 338969012185 AMP binding site [chemical binding]; other site 338969012186 active site 338969012187 CoA binding site [chemical binding]; other site 338969012188 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969012189 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969012190 Walker A/P-loop; other site 338969012191 ATP binding site [chemical binding]; other site 338969012192 Q-loop/lid; other site 338969012193 ABC transporter signature motif; other site 338969012194 Walker B; other site 338969012195 D-loop; other site 338969012196 H-loop/switch region; other site 338969012197 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 338969012198 putative ligand binding site [chemical binding]; other site 338969012199 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969012200 TM-ABC transporter signature motif; other site 338969012201 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969012202 TM-ABC transporter signature motif; other site 338969012203 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969012204 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969012205 Walker A/P-loop; other site 338969012206 ATP binding site [chemical binding]; other site 338969012207 Q-loop/lid; other site 338969012208 ABC transporter signature motif; other site 338969012209 Walker B; other site 338969012210 D-loop; other site 338969012211 H-loop/switch region; other site 338969012212 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 338969012213 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 338969012214 acyl-activating enzyme (AAE) consensus motif; other site 338969012215 putative AMP binding site [chemical binding]; other site 338969012216 putative active site [active] 338969012217 putative CoA binding site [chemical binding]; other site 338969012218 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969012219 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 338969012220 ligand binding site [chemical binding]; other site 338969012221 flexible hinge region; other site 338969012222 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969012223 non-specific DNA interactions [nucleotide binding]; other site 338969012224 DNA binding site [nucleotide binding] 338969012225 sequence specific DNA binding site [nucleotide binding]; other site 338969012226 putative cAMP binding site [chemical binding]; other site 338969012227 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 338969012228 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 338969012229 RNA binding surface [nucleotide binding]; other site 338969012230 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 338969012231 active site 338969012232 Putative lysophospholipase; Region: Hydrolase_4; cl19140 338969012233 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 338969012234 active site 338969012235 phosphorylation site [posttranslational modification] 338969012236 intermolecular recognition site; other site 338969012237 dimerization interface [polypeptide binding]; other site 338969012238 PAS domain; Region: PAS_9; pfam13426 338969012239 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 338969012240 active site 338969012241 phosphorylation site [posttranslational modification] 338969012242 intermolecular recognition site; other site 338969012243 dimerization interface [polypeptide binding]; other site 338969012244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969012245 metal binding site [ion binding]; metal-binding site 338969012246 active site 338969012247 I-site; other site 338969012248 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338969012249 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012250 putative active site [active] 338969012251 heme pocket [chemical binding]; other site 338969012252 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012253 putative active site [active] 338969012254 heme pocket [chemical binding]; other site 338969012255 PAS domain S-box; Region: sensory_box; TIGR00229 338969012256 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012257 putative active site [active] 338969012258 heme pocket [chemical binding]; other site 338969012259 PAS domain S-box; Region: sensory_box; TIGR00229 338969012260 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012261 putative active site [active] 338969012262 heme pocket [chemical binding]; other site 338969012263 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 338969012264 dimer interface [polypeptide binding]; other site 338969012265 phosphorylation site [posttranslational modification] 338969012266 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 338969012267 ATP binding site [chemical binding]; other site 338969012268 Mg2+ binding site [ion binding]; other site 338969012269 G-X-G motif; other site 338969012270 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 338969012271 active site 338969012272 phosphorylation site [posttranslational modification] 338969012273 intermolecular recognition site; other site 338969012274 dimerization interface [polypeptide binding]; other site 338969012275 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338969012276 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 338969012277 ligand binding site [chemical binding]; other site 338969012278 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 338969012279 heat shock protein 90; Provisional; Region: PRK05218 338969012280 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 338969012281 ATP binding site [chemical binding]; other site 338969012282 Mg2+ binding site [ion binding]; other site 338969012283 G-X-G motif; other site 338969012284 Hsp90 protein; Region: HSP90; pfam00183 338969012285 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 338969012286 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 338969012287 E3 interaction surface; other site 338969012288 lipoyl attachment site [posttranslational modification]; other site 338969012289 e3 binding domain; Region: E3_binding; pfam02817 338969012290 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 338969012291 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 338969012292 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 338969012293 alpha subunit interface [polypeptide binding]; other site 338969012294 TPP binding site [chemical binding]; other site 338969012295 heterodimer interface [polypeptide binding]; other site 338969012296 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338969012297 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 338969012298 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 338969012299 tetramer interface [polypeptide binding]; other site 338969012300 TPP-binding site [chemical binding]; other site 338969012301 heterodimer interface [polypeptide binding]; other site 338969012302 phosphorylation loop region [posttranslational modification] 338969012303 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 338969012304 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 338969012305 C-terminal domain interface [polypeptide binding]; other site 338969012306 GSH binding site (G-site) [chemical binding]; other site 338969012307 dimer interface [polypeptide binding]; other site 338969012308 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 338969012309 dimer interface [polypeptide binding]; other site 338969012310 N-terminal domain interface [polypeptide binding]; other site 338969012311 putative substrate binding pocket (H-site) [chemical binding]; other site 338969012312 ABC-2 type transporter; Region: ABC2_membrane; cl17235 338969012313 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 338969012314 nodulation ABC transporter NodI; Provisional; Region: PRK13537 338969012315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969012316 Walker A/P-loop; other site 338969012317 ATP binding site [chemical binding]; other site 338969012318 Q-loop/lid; other site 338969012319 ABC transporter signature motif; other site 338969012320 Walker B; other site 338969012321 D-loop; other site 338969012322 H-loop/switch region; other site 338969012323 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 338969012324 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338969012325 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969012326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 338969012327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 338969012328 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 338969012329 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 338969012330 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 338969012331 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 338969012332 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 338969012333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 338969012334 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 338969012335 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 338969012336 S-adenosylmethionine binding site [chemical binding]; other site 338969012337 AMP nucleosidase; Provisional; Region: PRK08292 338969012338 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 338969012339 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 338969012340 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 338969012341 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 338969012342 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012343 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 338969012344 putative active site [active] 338969012345 heme pocket [chemical binding]; other site 338969012346 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012347 putative active site [active] 338969012348 heme pocket [chemical binding]; other site 338969012349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969012350 metal binding site [ion binding]; metal-binding site 338969012351 active site 338969012352 I-site; other site 338969012353 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969012354 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 338969012355 active site 338969012356 phosphorylation site [posttranslational modification] 338969012357 intermolecular recognition site; other site 338969012358 dimerization interface [polypeptide binding]; other site 338969012359 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338969012360 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969012361 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 338969012362 dimer interface [polypeptide binding]; other site 338969012363 phosphorylation site [posttranslational modification] 338969012364 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 338969012365 ATP binding site [chemical binding]; other site 338969012366 G-X-G motif; other site 338969012367 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 338969012368 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 338969012369 putative active site [active] 338969012370 Zn binding site [ion binding]; other site 338969012371 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 338969012372 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 338969012373 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 338969012374 ATP binding site [chemical binding]; other site 338969012375 Mg++ binding site [ion binding]; other site 338969012376 motif III; other site 338969012377 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 338969012378 nucleotide binding region [chemical binding]; other site 338969012379 ATP-binding site [chemical binding]; other site 338969012380 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 338969012381 putative RNA binding site [nucleotide binding]; other site 338969012382 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 338969012383 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 338969012384 ATP binding site [chemical binding]; other site 338969012385 Mg++ binding site [ion binding]; other site 338969012386 motif III; other site 338969012387 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 338969012388 nucleotide binding region [chemical binding]; other site 338969012389 ATP-binding site [chemical binding]; other site 338969012390 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 338969012391 malate synthase G; Provisional; Region: PRK02999 338969012392 active site 338969012393 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 338969012394 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 338969012395 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 338969012396 motif II; other site 338969012397 Transcriptional regulators [Transcription]; Region: FadR; COG2186 338969012398 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969012399 DNA-binding site [nucleotide binding]; DNA binding site 338969012400 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 338969012401 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 338969012402 NAD(P) binding site [chemical binding]; other site 338969012403 catalytic residues [active] 338969012404 catalytic residues [active] 338969012405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969012406 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 338969012407 NAD(P) binding site [chemical binding]; other site 338969012408 active site 338969012409 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 338969012410 active site 338969012411 phosphorylation site [posttranslational modification] 338969012412 intermolecular recognition site; other site 338969012413 dimerization interface [polypeptide binding]; other site 338969012414 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 338969012415 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 338969012416 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 338969012417 dimerization interface [polypeptide binding]; other site 338969012418 PAS domain; Region: PAS; smart00091 338969012419 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 338969012420 dimer interface [polypeptide binding]; other site 338969012421 phosphorylation site [posttranslational modification] 338969012422 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 338969012423 ATP binding site [chemical binding]; other site 338969012424 Mg2+ binding site [ion binding]; other site 338969012425 G-X-G motif; other site 338969012426 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 338969012427 16S rRNA methyltransferase B; Provisional; Region: PRK10901 338969012428 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 338969012429 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 338969012430 S-adenosylmethionine binding site [chemical binding]; other site 338969012431 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 338969012432 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 338969012433 beta and beta' interface [polypeptide binding]; other site 338969012434 beta' and sigma factor interface [polypeptide binding]; other site 338969012435 Zn-binding [ion binding]; other site 338969012436 active site region [active] 338969012437 catalytic site [active] 338969012438 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 338969012439 cleft; other site 338969012440 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 338969012441 Rpb1 - Rpb2 interaction site [polypeptide binding]; other site 338969012442 DNA binding site [nucleotide binding] 338969012443 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 338969012444 clamp; other site 338969012445 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 338969012446 DNA binding site [nucleotide binding] 338969012447 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 338969012448 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 338969012449 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 338969012450 RPB12 interaction site [polypeptide binding]; other site 338969012451 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 338969012452 RPB1 interaction site [polypeptide binding]; other site 338969012453 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 338969012454 RPB10 interaction site [polypeptide binding]; other site 338969012455 RPB11 interaction site [polypeptide binding]; other site 338969012456 RPB3 interaction site [polypeptide binding]; other site 338969012457 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 338969012458 peripheral dimer interface [polypeptide binding]; other site 338969012459 core dimer interface [polypeptide binding]; other site 338969012460 L10 interface [polypeptide binding]; other site 338969012461 L11 interface [polypeptide binding]; other site 338969012462 putative EF-Tu interaction site [polypeptide binding]; other site 338969012463 putative EF-G interaction site [polypeptide binding]; other site 338969012464 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 338969012465 23S rRNA interface [nucleotide binding]; other site 338969012466 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 338969012467 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 338969012468 mRNA/rRNA interface [nucleotide binding]; other site 338969012469 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 338969012470 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 338969012471 23S rRNA interface [nucleotide binding]; other site 338969012472 L7/L12 interface [polypeptide binding]; other site 338969012473 putative thiostrepton binding site; other site 338969012474 L25 interface [polypeptide binding]; other site 338969012475 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 338969012476 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 338969012477 putative homodimer interface [polypeptide binding]; other site 338969012478 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 338969012479 heterodimer interface [polypeptide binding]; other site 338969012480 homodimer interface [polypeptide binding]; other site 338969012481 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 338969012482 elongation factor Tu; Reviewed; Region: PRK00049 338969012483 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 338969012484 G1 box; other site 338969012485 GEF interaction site [polypeptide binding]; other site 338969012486 GTP/Mg2+ binding site [chemical binding]; other site 338969012487 Switch I region; other site 338969012488 G2 box; other site 338969012489 G3 box; other site 338969012490 Switch II region; other site 338969012491 G4 box; other site 338969012492 G5 box; other site 338969012493 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 338969012494 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 338969012495 Antibiotic Binding Site [chemical binding]; other site 338969012496 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 338969012497 ligand binding site [chemical binding]; other site 338969012498 active site 338969012499 UGI interface [polypeptide binding]; other site 338969012500 catalytic site [active] 338969012501 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 338969012502 active site 338969012503 ribulose/triose binding site [chemical binding]; other site 338969012504 phosphate binding site [ion binding]; other site 338969012505 substrate (anthranilate) binding pocket [chemical binding]; other site 338969012506 product (indole) binding pocket [chemical binding]; other site 338969012507 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 338969012508 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 338969012509 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 338969012510 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; cl18945 338969012511 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 338969012512 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969012513 catalytic residue [active] 338969012514 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 338969012515 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 338969012516 glutamine binding [chemical binding]; other site 338969012517 catalytic triad [active] 338969012518 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012519 PAS fold; Region: PAS_3; pfam08447 338969012520 putative active site [active] 338969012521 heme pocket [chemical binding]; other site 338969012522 PAS domain; Region: PAS_9; pfam13426 338969012523 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012524 putative active site [active] 338969012525 heme pocket [chemical binding]; other site 338969012526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969012527 metal binding site [ion binding]; metal-binding site 338969012528 active site 338969012529 I-site; other site 338969012530 anthranilate synthase component I; Provisional; Region: PRK13565 338969012531 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 338969012532 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 338969012533 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 338969012534 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 338969012535 Tar ligand binding domain homologue; Region: TarH; pfam02203 338969012536 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 338969012537 dimerization interface [polypeptide binding]; other site 338969012538 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969012539 dimer interface [polypeptide binding]; other site 338969012540 putative CheW interface [polypeptide binding]; other site 338969012541 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969012542 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338969012543 HAMP domain; Region: HAMP; pfam00672 338969012544 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969012545 dimer interface [polypeptide binding]; other site 338969012546 putative CheW interface [polypeptide binding]; other site 338969012547 phosphoglycolate phosphatase; Provisional; Region: PRK13222 338969012548 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 338969012549 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 338969012550 motif II; other site 338969012551 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 338969012552 B12 binding site [chemical binding]; other site 338969012553 cobalt ligand [ion binding]; other site 338969012554 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 338969012555 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 338969012556 Walker A; other site 338969012557 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 338969012558 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; cl00125 338969012559 active site residue [active] 338969012560 pantothenate kinase; Reviewed; Region: PRK13329 338969012561 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 338969012562 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 338969012563 metal binding site [ion binding]; metal-binding site 338969012564 putative dimer interface [polypeptide binding]; other site 338969012565 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 338969012566 putative catalytic site [active] 338969012567 putative metal binding site [ion binding]; other site 338969012568 putative phosphate binding site [ion binding]; other site 338969012569 cardiolipin synthase 2; Provisional; Region: PRK11263 338969012570 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 338969012571 putative active site [active] 338969012572 catalytic site [active] 338969012573 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 338969012574 putative active site [active] 338969012575 catalytic site [active] 338969012576 Predicted integral membrane protein [Function unknown]; Region: COG0392 338969012577 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 338969012578 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 338969012579 putative [4Fe-4S] binding site [ion binding]; other site 338969012580 putative molybdopterin cofactor binding site [chemical binding]; other site 338969012581 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 338969012582 putative molybdopterin cofactor binding site; other site 338969012583 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338969012584 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969012585 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 338969012586 putative effector binding pocket; other site 338969012587 dimerization interface [polypeptide binding]; other site 338969012588 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969012589 EamA-like transporter family; Region: EamA; pfam00892 338969012590 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969012591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969012592 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969012593 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969012594 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338969012595 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338969012596 FtsX-like permease family; Region: FtsX; pfam02687 338969012597 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338969012598 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338969012599 Walker A/P-loop; other site 338969012600 ATP binding site [chemical binding]; other site 338969012601 Q-loop/lid; other site 338969012602 ABC transporter signature motif; other site 338969012603 Walker B; other site 338969012604 D-loop; other site 338969012605 H-loop/switch region; other site 338969012606 HAMP domain; Region: HAMP; pfam00672 338969012607 PAS domain; Region: PAS_9; pfam13426 338969012608 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969012609 metal binding site [ion binding]; metal-binding site 338969012610 active site 338969012611 I-site; other site 338969012612 Hemerythrin; Region: Hemerythrin; cd12107 338969012613 Fe binding site [ion binding]; other site 338969012614 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 338969012615 CoenzymeA binding site [chemical binding]; other site 338969012616 subunit interaction site [polypeptide binding]; other site 338969012617 PHB binding site; other site 338969012618 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 338969012619 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 338969012620 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 338969012621 active site residue [active] 338969012622 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 338969012623 active site residue [active] 338969012624 Copper resistance protein D; Region: CopD; cl00563 338969012625 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 338969012626 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 338969012627 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 338969012628 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 338969012629 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 338969012630 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 338969012631 dimerization interface [polypeptide binding]; other site 338969012632 putative DNA binding site [nucleotide binding]; other site 338969012633 putative Zn2+ binding site [ion binding]; other site 338969012634 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 338969012635 putative FMN binding site [chemical binding]; other site 338969012636 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 338969012637 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969012638 Zn2+ binding site [ion binding]; other site 338969012639 Mg2+ binding site [ion binding]; other site 338969012640 RNA polymerase sigma factor, SigZ family; Region: SigZ; TIGR02959 338969012641 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969012642 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 338969012643 DNA binding residues [nucleotide binding] 338969012644 Helix-turn-helix domain; Region: HTH_38; pfam13936 338969012645 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 338969012646 Integrase core domain; Region: rve; pfam00665 338969012647 Predicted permeases [General function prediction only]; Region: COG0701 338969012648 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 338969012649 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 338969012650 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 338969012651 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 338969012652 dimerization interface [polypeptide binding]; other site 338969012653 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 338969012654 dimer interface [polypeptide binding]; other site 338969012655 phosphorylation site [posttranslational modification] 338969012656 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 338969012657 ATP binding site [chemical binding]; other site 338969012658 Mg2+ binding site [ion binding]; other site 338969012659 G-X-G motif; other site 338969012660 osmolarity response regulator; Provisional; Region: ompR; PRK09468 338969012661 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 338969012662 active site 338969012663 phosphorylation site [posttranslational modification] 338969012664 intermolecular recognition site; other site 338969012665 dimerization interface [polypeptide binding]; other site 338969012666 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 338969012667 DNA binding site [nucleotide binding] 338969012668 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 338969012669 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 338969012670 dimerization interface [polypeptide binding]; other site 338969012671 putative DNA binding site [nucleotide binding]; other site 338969012672 putative Zn2+ binding site [ion binding]; other site 338969012673 AsnC family; Region: AsnC_trans_reg; pfam01037 338969012674 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 338969012675 homodimer interface [polypeptide binding]; other site 338969012676 substrate-cofactor binding pocket; other site 338969012677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969012678 catalytic residue [active] 338969012679 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 338969012680 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 338969012681 dimer interface [polypeptide binding]; other site 338969012682 TPP-binding site [chemical binding]; other site 338969012683 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 338969012684 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338969012685 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl17448 338969012686 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 338969012687 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 338969012688 active site 338969012689 dimer interface [polypeptide binding]; other site 338969012690 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 338969012691 Ligand Binding Site [chemical binding]; other site 338969012692 Molecular Tunnel; other site 338969012693 Uncharacterized conserved protein [Function unknown]; Region: COG4121 338969012694 PAS fold; Region: PAS_3; pfam08447 338969012695 PAS domain S-box; Region: sensory_box; TIGR00229 338969012696 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012697 putative active site [active] 338969012698 heme pocket [chemical binding]; other site 338969012699 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969012700 metal binding site [ion binding]; metal-binding site 338969012701 active site 338969012702 I-site; other site 338969012703 Patatin-like phospholipase; Region: Patatin; pfam01734 338969012704 active site 338969012705 nucleophile elbow; other site 338969012706 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969012707 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 338969012708 putative substrate translocation pore; other site 338969012709 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 338969012710 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; cl19952 338969012711 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; cl01298 338969012712 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 338969012713 active site 338969012714 catalytic residues [active] 338969012715 arsenical-resistance protein; Region: acr3; TIGR00832 338969012716 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 338969012717 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 338969012718 P loop; other site 338969012719 Nucleotide binding site [chemical binding]; other site 338969012720 DTAP/Switch II; other site 338969012721 Switch I; other site 338969012722 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 338969012723 P loop; other site 338969012724 Nucleotide binding site [chemical binding]; other site 338969012725 DTAP/Switch II; other site 338969012726 Switch I; other site 338969012727 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 338969012728 Low molecular weight phosphatase family; Region: LMWPc; cd00115 338969012729 active site 338969012730 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 338969012731 dimerization interface [polypeptide binding]; other site 338969012732 putative DNA binding site [nucleotide binding]; other site 338969012733 putative Zn2+ binding site [ion binding]; other site 338969012734 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 338969012735 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 338969012736 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969012737 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 338969012738 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 338969012739 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 338969012740 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 338969012741 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 338969012742 dimer interface [polypeptide binding]; other site 338969012743 conserved gate region; other site 338969012744 putative PBP binding loops; other site 338969012745 ABC-ATPase subunit interface; other site 338969012746 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 338969012747 dimer interface [polypeptide binding]; other site 338969012748 conserved gate region; other site 338969012749 putative PBP binding loops; other site 338969012750 ABC-ATPase subunit interface; other site 338969012751 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 338969012752 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 338969012753 Walker A/P-loop; other site 338969012754 ATP binding site [chemical binding]; other site 338969012755 Q-loop/lid; other site 338969012756 ABC transporter signature motif; other site 338969012757 Walker B; other site 338969012758 D-loop; other site 338969012759 H-loop/switch region; other site 338969012760 TOBE domain; Region: TOBE_2; pfam08402 338969012761 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 338969012762 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 338969012763 Walker A/P-loop; other site 338969012764 ATP binding site [chemical binding]; other site 338969012765 Q-loop/lid; other site 338969012766 ABC transporter signature motif; other site 338969012767 Walker B; other site 338969012768 D-loop; other site 338969012769 H-loop/switch region; other site 338969012770 TOBE domain; Region: TOBE_2; pfam08402 338969012771 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 338969012772 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 338969012773 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 338969012774 glycerol kinase; Provisional; Region: glpK; PRK00047 338969012775 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 338969012776 N- and C-terminal domain interface [polypeptide binding]; other site 338969012777 active site 338969012778 MgATP binding site [chemical binding]; other site 338969012779 catalytic site [active] 338969012780 metal binding site [ion binding]; metal-binding site 338969012781 glycerol binding site [chemical binding]; other site 338969012782 homotetramer interface [polypeptide binding]; other site 338969012783 homodimer interface [polypeptide binding]; other site 338969012784 FBP binding site [chemical binding]; other site 338969012785 protein IIAGlc interface [polypeptide binding]; other site 338969012786 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 338969012787 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 338969012788 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 338969012789 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 338969012790 putative active site [active] 338969012791 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 338969012792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969012793 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 338969012794 dimerization interface [polypeptide binding]; other site 338969012795 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 338969012796 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 338969012797 active site 338969012798 metal binding site [ion binding]; metal-binding site 338969012799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969012800 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 338969012801 ATP binding site [chemical binding]; other site 338969012802 Mg2+ binding site [ion binding]; other site 338969012803 G-X-G motif; other site 338969012804 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969012805 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 338969012806 active site 338969012807 phosphorylation site [posttranslational modification] 338969012808 intermolecular recognition site; other site 338969012809 dimerization interface [polypeptide binding]; other site 338969012810 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 338969012811 DNA binding site [nucleotide binding] 338969012812 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 338969012813 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 338969012814 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 338969012815 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 338969012816 generic binding surface II; other site 338969012817 ssDNA binding site; other site 338969012818 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 338969012819 ATP binding site [chemical binding]; other site 338969012820 putative Mg++ binding site [ion binding]; other site 338969012821 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 338969012822 nucleotide binding region [chemical binding]; other site 338969012823 ATP-binding site [chemical binding]; other site 338969012824 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969012825 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969012826 active site 338969012827 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 338969012828 substrate binding site [chemical binding]; other site 338969012829 hinge regions; other site 338969012830 ADP binding site [chemical binding]; other site 338969012831 catalytic site [active] 338969012832 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 338969012833 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338969012834 catalytic residue [active] 338969012835 Protein of unknown function DUF45; Region: DUF45; pfam01863 338969012836 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338969012837 putative acyl-acceptor binding pocket; other site 338969012838 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 338969012839 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 338969012840 active site 338969012841 motif I; other site 338969012842 motif II; other site 338969012843 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 338969012844 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 338969012845 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 338969012846 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 338969012847 dimer interface [polypeptide binding]; other site 338969012848 motif 1; other site 338969012849 active site 338969012850 motif 2; other site 338969012851 motif 3; other site 338969012852 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 338969012853 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 338969012854 putative active site [active] 338969012855 catalytic triad [active] 338969012856 putative dimer interface [polypeptide binding]; other site 338969012857 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 338969012858 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 338969012859 Transporter associated domain; Region: CorC_HlyC; smart01091 338969012860 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 338969012861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969012862 Coenzyme A binding pocket [chemical binding]; other site 338969012863 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 338969012864 Flagellar transcriptional activator (FlhC); Region: FlhC; pfam05280 338969012865 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 338969012866 flagellar motor protein MotB; Validated; Region: motB; PRK09041 338969012867 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 338969012868 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338969012869 ligand binding site [chemical binding]; other site 338969012870 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 338969012871 active site 338969012872 phosphorylation site [posttranslational modification] 338969012873 intermolecular recognition site; other site 338969012874 dimerization interface [polypeptide binding]; other site 338969012875 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 338969012876 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 338969012877 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 338969012878 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 338969012879 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 338969012880 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 338969012881 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969012882 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 338969012883 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 338969012884 DNA binding residues [nucleotide binding] 338969012885 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 338969012886 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 338969012887 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 338969012888 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 338969012889 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 338969012890 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 338969012891 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 338969012892 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 338969012893 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 338969012894 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 338969012895 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 338969012896 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 338969012897 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 338969012898 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 338969012899 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 338969012900 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 338969012901 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 338969012902 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 338969012903 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 338969012904 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 338969012905 Flagellar L-ring protein; Region: FlgH; pfam02107 338969012906 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 338969012907 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 338969012908 Rod binding protein; Region: Rod-binding; cl01626 338969012909 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 338969012910 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 338969012911 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 338969012912 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 338969012913 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 338969012914 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 338969012915 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 338969012916 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969012917 DNA-binding site [nucleotide binding]; DNA binding site 338969012918 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 338969012919 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 338969012920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969012921 homodimer interface [polypeptide binding]; other site 338969012922 catalytic residue [active] 338969012923 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 338969012924 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 338969012925 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969012926 EamA-like transporter family; Region: EamA; pfam00892 338969012927 EamA-like transporter family; Region: EamA; pfam00892 338969012928 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 338969012929 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 338969012930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969012931 homodimer interface [polypeptide binding]; other site 338969012932 catalytic residue [active] 338969012933 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 338969012934 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 338969012935 putative C-terminal domain interface [polypeptide binding]; other site 338969012936 putative GSH binding site (G-site) [chemical binding]; other site 338969012937 putative dimer interface [polypeptide binding]; other site 338969012938 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 338969012939 putative N-terminal domain interface [polypeptide binding]; other site 338969012940 putative dimer interface [polypeptide binding]; other site 338969012941 putative substrate binding pocket (H-site) [chemical binding]; other site 338969012942 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 338969012943 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 338969012944 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 338969012945 catalytic core [active] 338969012946 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 338969012947 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 338969012948 Phosphoesterase family; Region: Phosphoesterase; pfam04185 338969012949 Domain of unknown function (DUF756); Region: DUF756; pfam05506 338969012950 Domain of unknown function (DUF756); Region: DUF756; pfam05506 338969012951 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 338969012952 Phosphoesterase family; Region: Phosphoesterase; pfam04185 338969012953 Domain of unknown function (DUF756); Region: DUF756; pfam05506 338969012954 Domain of unknown function (DUF756); Region: DUF756; pfam05506 338969012955 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338969012956 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 338969012957 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 338969012958 motif II; other site 338969012959 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 338969012960 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 338969012961 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 338969012962 cyanate hydratase; Validated; Region: PRK02866 338969012963 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 338969012964 oligomer interface [polypeptide binding]; other site 338969012965 active site 338969012966 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 338969012967 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 338969012968 Walker A/P-loop; other site 338969012969 ATP binding site [chemical binding]; other site 338969012970 Q-loop/lid; other site 338969012971 ABC transporter signature motif; other site 338969012972 Walker B; other site 338969012973 D-loop; other site 338969012974 H-loop/switch region; other site 338969012975 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 338969012976 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 338969012977 dimer interface [polypeptide binding]; other site 338969012978 conserved gate region; other site 338969012979 putative PBP binding loops; other site 338969012980 ABC-ATPase subunit interface; other site 338969012981 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 338969012982 NMT1-like family; Region: NMT1_2; pfam13379 338969012983 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969012984 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 338969012985 active site 338969012986 phosphorylation site [posttranslational modification] 338969012987 intermolecular recognition site; other site 338969012988 dimerization interface [polypeptide binding]; other site 338969012989 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 338969012990 DNA binding residues [nucleotide binding] 338969012991 dimerization interface [polypeptide binding]; other site 338969012992 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969012993 PAS domain; Region: PAS_9; pfam13426 338969012994 putative active site [active] 338969012995 heme pocket [chemical binding]; other site 338969012996 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 338969012997 Histidine kinase; Region: HisKA_3; pfam07730 338969012998 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 338969012999 ATP binding site [chemical binding]; other site 338969013000 Mg2+ binding site [ion binding]; other site 338969013001 G-X-G motif; other site 338969013002 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338969013003 EamA-like transporter family; Region: EamA; pfam00892 338969013004 EamA-like transporter family; Region: EamA; cl17759 338969013005 Creatinine amidohydrolase; Region: Creatininase; pfam02633 338969013006 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 338969013007 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 338969013008 PhnA protein; Region: PhnA; pfam03831 338969013009 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 338969013010 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 338969013011 Cl binding site [ion binding]; other site 338969013012 oligomer interface [polypeptide binding]; other site 338969013013 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 338969013014 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 338969013015 intersubunit interface [polypeptide binding]; other site 338969013016 active site 338969013017 Zn2+ binding site [ion binding]; other site 338969013018 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 338969013019 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 338969013020 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 338969013021 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 338969013022 acyl-activating enzyme (AAE) consensus motif; other site 338969013023 putative AMP binding site [chemical binding]; other site 338969013024 putative active site [active] 338969013025 putative CoA binding site [chemical binding]; other site 338969013026 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 338969013027 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 338969013028 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 338969013029 ligand binding site [chemical binding]; other site 338969013030 homodimer interface [polypeptide binding]; other site 338969013031 NAD(P) binding site [chemical binding]; other site 338969013032 trimer interface B [polypeptide binding]; other site 338969013033 trimer interface A [polypeptide binding]; other site 338969013034 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 338969013035 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 338969013036 nudix motif; other site 338969013037 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 338969013038 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 338969013039 Ligand Binding Site [chemical binding]; other site 338969013040 Uncharacterized family 4; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_4; cd10161 338969013041 putative homodimer interface [polypeptide binding]; other site 338969013042 putative homotetramer interface [polypeptide binding]; other site 338969013043 putative metal binding site [ion binding]; other site 338969013044 putative homodimer-homodimer interface [polypeptide binding]; other site 338969013045 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 338969013046 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 338969013047 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 338969013048 MMPL family; Region: MMPL; cl14618 338969013049 MMPL family; Region: MMPL; cl14618 338969013050 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969013051 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338969013052 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969013053 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 338969013054 Outer membrane efflux protein; Region: OEP; pfam02321 338969013055 Outer membrane efflux protein; Region: OEP; pfam02321 338969013056 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338969013057 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338969013058 ligand binding site [chemical binding]; other site 338969013059 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: Peptidase_C93; cl17596 338969013060 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 338969013061 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 338969013062 dimerization interface [polypeptide binding]; other site 338969013063 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 338969013064 nucleotidyl binding site; other site 338969013065 metal binding site [ion binding]; metal-binding site 338969013066 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969013067 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 338969013068 Sel1-like repeats; Region: SEL1; smart00671 338969013069 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338969013070 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 338969013071 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338969013072 catalytic residue [active] 338969013073 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 338969013074 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338969013075 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; cl19078 338969013076 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 338969013077 DNA binding residues [nucleotide binding] 338969013078 dimerization interface [polypeptide binding]; other site 338969013079 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 338969013080 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 338969013081 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969013082 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_C39_likeD; cd02421 338969013083 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 338969013084 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338969013085 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 338969013086 Walker A/P-loop; other site 338969013087 ATP binding site [chemical binding]; other site 338969013088 Q-loop/lid; other site 338969013089 ABC transporter signature motif; other site 338969013090 Walker B; other site 338969013091 D-loop; other site 338969013092 H-loop/switch region; other site 338969013093 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 338969013094 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 338969013095 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 338969013096 dimer interface [polypeptide binding]; other site 338969013097 ssDNA binding site [nucleotide binding]; other site 338969013098 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338969013099 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 338969013100 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969013101 putative substrate translocation pore; other site 338969013102 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 338969013103 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 338969013104 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 338969013105 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 338969013106 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 338969013107 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 338969013108 acyl-activating enzyme (AAE) consensus motif; other site 338969013109 putative AMP binding site [chemical binding]; other site 338969013110 putative active site [active] 338969013111 putative CoA binding site [chemical binding]; other site 338969013112 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 338969013113 active site 338969013114 dimer interface [polypeptide binding]; other site 338969013115 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 338969013116 active site 338969013117 catalytic site [active] 338969013118 substrate binding site [chemical binding]; other site 338969013119 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 338969013120 active site 338969013121 phosphorylation site [posttranslational modification] 338969013122 intermolecular recognition site; other site 338969013123 dimerization interface [polypeptide binding]; other site 338969013124 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 338969013125 Na binding site [ion binding]; other site 338969013126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969013127 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 338969013128 dimer interface [polypeptide binding]; other site 338969013129 phosphorylation site [posttranslational modification] 338969013130 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 338969013131 ATP binding site [chemical binding]; other site 338969013132 Mg2+ binding site [ion binding]; other site 338969013133 G-X-G motif; other site 338969013134 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 338969013135 Protein of unknown function, DUF485; Region: DUF485; pfam04341 338969013136 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 338969013137 Na binding site [ion binding]; other site 338969013138 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 338969013139 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 338969013140 ligand binding site [chemical binding]; other site 338969013141 flexible hinge region; other site 338969013142 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 338969013143 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338969013144 metal binding triad; other site 338969013145 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 338969013146 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 338969013147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338969013148 Coenzyme A binding pocket [chemical binding]; other site 338969013149 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 338969013150 catalytic triad [active] 338969013151 dimer interface [polypeptide binding]; other site 338969013152 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 338969013153 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 338969013154 23S rRNA interface [nucleotide binding]; other site 338969013155 putative translocon interaction site; other site 338969013156 signal recognition particle (SRP54) interaction site; other site 338969013157 L23 interface [polypeptide binding]; other site 338969013158 trigger factor interaction site; other site 338969013159 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 338969013160 23S rRNA interface [nucleotide binding]; other site 338969013161 5S rRNA interface [nucleotide binding]; other site 338969013162 putative antibiotic binding site [chemical binding]; other site 338969013163 L25 interface [polypeptide binding]; other site 338969013164 L27 interface [polypeptide binding]; other site 338969013165 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 338969013166 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 338969013167 G-X-X-G motif; other site 338969013168 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 338969013169 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 338969013170 putative translocon binding site; other site 338969013171 protein-rRNA interface [nucleotide binding]; other site 338969013172 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 338969013173 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 338969013174 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 338969013175 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 338969013176 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 338969013177 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 338969013178 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 338969013179 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 338969013180 elongation factor Tu; Reviewed; Region: PRK00049 338969013181 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 338969013182 G1 box; other site 338969013183 GEF interaction site [polypeptide binding]; other site 338969013184 GTP/Mg2+ binding site [chemical binding]; other site 338969013185 Switch I region; other site 338969013186 G2 box; other site 338969013187 G3 box; other site 338969013188 Switch II region; other site 338969013189 G4 box; other site 338969013190 G5 box; other site 338969013191 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 338969013192 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 338969013193 Antibiotic Binding Site [chemical binding]; other site 338969013194 elongation factor G; Reviewed; Region: PRK00007 338969013195 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 338969013196 G1 box; other site 338969013197 putative GEF interaction site [polypeptide binding]; other site 338969013198 GTP/Mg2+ binding site [chemical binding]; other site 338969013199 Switch I region; other site 338969013200 G2 box; other site 338969013201 G3 box; other site 338969013202 Switch II region; other site 338969013203 G4 box; other site 338969013204 G5 box; other site 338969013205 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 338969013206 Elongation Factor G, domain II; Region: EFG_II; pfam14492 338969013207 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 338969013208 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 338969013209 30S ribosomal protein S7; Validated; Region: PRK05302 338969013210 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 338969013211 S17 interaction site [polypeptide binding]; other site 338969013212 S8 interaction site; other site 338969013213 16S rRNA interaction site [nucleotide binding]; other site 338969013214 streptomycin interaction site [chemical binding]; other site 338969013215 23S rRNA interaction site [nucleotide binding]; other site 338969013216 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 338969013217 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 338969013218 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 338969013219 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 338969013220 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 338969013221 dimer interface [polypeptide binding]; other site 338969013222 [2Fe-2S] cluster binding site [ion binding]; other site 338969013223 VanZ like family; Region: VanZ; cl01971 338969013224 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 338969013225 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 338969013226 dimer interface [polypeptide binding]; other site 338969013227 active site 338969013228 aspartate-rich active site metal binding site; other site 338969013229 allosteric magnesium binding site [ion binding]; other site 338969013230 Schiff base residues; other site 338969013231 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 338969013232 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 338969013233 oligomer interface [polypeptide binding]; other site 338969013234 metal binding site [ion binding]; metal-binding site 338969013235 metal binding site [ion binding]; metal-binding site 338969013236 putative Cl binding site [ion binding]; other site 338969013237 aspartate ring; other site 338969013238 basic sphincter; other site 338969013239 hydrophobic gate; other site 338969013240 periplasmic entrance; other site 338969013241 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 338969013242 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969013243 substrate binding pocket [chemical binding]; other site 338969013244 membrane-bound complex binding site; other site 338969013245 hinge residues; other site 338969013246 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969013247 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 338969013248 dimer interface [polypeptide binding]; other site 338969013249 conserved gate region; other site 338969013250 putative PBP binding loops; other site 338969013251 ABC-ATPase subunit interface; other site 338969013252 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969013253 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969013254 Walker A/P-loop; other site 338969013255 ATP binding site [chemical binding]; other site 338969013256 Q-loop/lid; other site 338969013257 ABC transporter signature motif; other site 338969013258 Walker B; other site 338969013259 D-loop; other site 338969013260 H-loop/switch region; other site 338969013261 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 338969013262 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338969013263 putative RNA binding sites [nucleotide binding]; other site 338969013264 ProQ/FINO family; Region: ProQ; smart00945 338969013265 MarC family integral membrane protein; Region: MarC; cl00919 338969013266 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 338969013267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969013268 Walker A/P-loop; other site 338969013269 ATP binding site [chemical binding]; other site 338969013270 Q-loop/lid; other site 338969013271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969013272 ABC transporter signature motif; other site 338969013273 Walker B; other site 338969013274 D-loop; other site 338969013275 H-loop/switch region; other site 338969013276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969013277 Walker A/P-loop; other site 338969013278 ATP binding site [chemical binding]; other site 338969013279 Q-loop/lid; other site 338969013280 ABC transporter signature motif; other site 338969013281 Walker B; other site 338969013282 D-loop; other site 338969013283 H-loop/switch region; other site 338969013284 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 338969013285 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969013286 Walker A/P-loop; other site 338969013287 ATP binding site [chemical binding]; other site 338969013288 Q-loop/lid; other site 338969013289 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 338969013290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969013291 Walker A/P-loop; other site 338969013292 ATP binding site [chemical binding]; other site 338969013293 Q-loop/lid; other site 338969013294 ABC transporter signature motif; other site 338969013295 Walker B; other site 338969013296 D-loop; other site 338969013297 H-loop/switch region; other site 338969013298 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 338969013299 putative ligand binding site [chemical binding]; other site 338969013300 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 338969013301 putative catalytic residue [active] 338969013302 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 338969013303 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 338969013304 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 338969013305 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 338969013306 active site 338969013307 phosphorylation site [posttranslational modification] 338969013308 intermolecular recognition site; other site 338969013309 dimerization interface [polypeptide binding]; other site 338969013310 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 338969013311 DNA binding site [nucleotide binding] 338969013312 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969013313 HAMP domain; Region: HAMP; pfam00672 338969013314 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 338969013315 dimer interface [polypeptide binding]; other site 338969013316 phosphorylation site [posttranslational modification] 338969013317 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 338969013318 ATP binding site [chemical binding]; other site 338969013319 Mg2+ binding site [ion binding]; other site 338969013320 G-X-G motif; other site 338969013321 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 338969013322 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 338969013323 PDZ domain of trypsin-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 338969013324 protein binding site [polypeptide binding]; other site 338969013325 PDZ domain of trypsin-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 338969013326 protein binding site [polypeptide binding]; other site 338969013327 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 338969013328 putative deacylase active site [active] 338969013329 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 338969013330 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 338969013331 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 338969013332 active site 338969013333 catalytic residues [active] 338969013334 metal binding site [ion binding]; metal-binding site 338969013335 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 338969013336 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 338969013337 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 338969013338 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 338969013339 conjugal transfer protein TrbL; Provisional; Region: PRK13875 338969013340 putative peptide-modifying radical SAM enzyme, AF0577 family; Region: rSAM_AF0577; TIGR04084 338969013341 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 338969013342 FeS/SAM binding site; other site 338969013343 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 338969013344 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 338969013345 putative ligand binding site [chemical binding]; other site 338969013346 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 338969013347 NAD binding site [chemical binding]; other site 338969013348 dimerization interface [polypeptide binding]; other site 338969013349 catalytic site [active] 338969013350 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 338969013351 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338969013352 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338969013353 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 338969013354 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 338969013355 carboxyltransferase (CT) interaction site; other site 338969013356 biotinylation site [posttranslational modification]; other site 338969013357 enoyl-CoA hydratase; Provisional; Region: PRK05995 338969013358 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 338969013359 substrate binding site [chemical binding]; other site 338969013360 oxyanion hole (OAH) forming residues; other site 338969013361 trimer interface [polypeptide binding]; other site 338969013362 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 338969013363 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 338969013364 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 338969013365 AMP-binding domain protein; Validated; Region: PRK08315 338969013366 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 338969013367 acyl-activating enzyme (AAE) consensus motif; other site 338969013368 putative AMP binding site [chemical binding]; other site 338969013369 putative active site [active] 338969013370 putative CoA binding site [chemical binding]; other site 338969013371 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 338969013372 Helix-turn-helix domain; Region: HTH_18; pfam12833 338969013373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338969013374 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 338969013375 active site 338969013376 catalytic residue [active] 338969013377 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969013378 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969013379 active site 338969013380 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 338969013381 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 338969013382 dimer interface [polypeptide binding]; other site 338969013383 active site 338969013384 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 338969013385 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 338969013386 active site clefts [active] 338969013387 zinc binding site [ion binding]; other site 338969013388 dimer interface [polypeptide binding]; other site 338969013389 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 338969013390 isovaleryl-CoA dehydrogenase; Region: PLN02519 338969013391 substrate binding site [chemical binding]; other site 338969013392 FAD binding site [chemical binding]; other site 338969013393 catalytic base [active] 338969013394 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 338969013395 DNA binding residues [nucleotide binding] 338969013396 putative transcriptional regulator MerR; Provisional; Region: PRK13752 338969013397 putative dimer interface [polypeptide binding]; other site 338969013398 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 338969013399 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 338969013400 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 338969013401 Aspartase; Region: Aspartase; cd01357 338969013402 active sites [active] 338969013403 tetramer interface [polypeptide binding]; other site 338969013404 PEP-CTERM motif; Region: VPEP; pfam07589 338969013405 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 338969013406 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 338969013407 molybdopterin cofactor binding site; other site 338969013408 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 338969013409 molybdopterin cofactor binding site; other site 338969013410 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 338969013411 30S subunit binding site; other site 338969013412 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 338969013413 DNA-binding site [nucleotide binding]; DNA binding site 338969013414 RNA-binding motif; other site 338969013415 FOG: CBS domain [General function prediction only]; Region: COG0517 338969013416 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 338969013417 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 338969013418 putative active site [active] 338969013419 putative metal binding site [ion binding]; other site 338969013420 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 338969013421 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 338969013422 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 338969013423 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 338969013424 nickel binding site [ion binding]; other site 338969013425 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 338969013426 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 338969013427 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 338969013428 catalytic loop [active] 338969013429 iron binding site [ion binding]; other site 338969013430 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 338969013431 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 338969013432 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 338969013433 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338969013434 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 338969013435 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 338969013436 SLBB domain; Region: SLBB; pfam10531 338969013437 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 338969013438 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 338969013439 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 338969013440 putative active site [active] 338969013441 substrate binding site [chemical binding]; other site 338969013442 putative cosubstrate binding site; other site 338969013443 catalytic site [active] 338969013444 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 338969013445 substrate binding site [chemical binding]; other site 338969013446 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 338969013447 active site 338969013448 catalytic residues [active] 338969013449 metal binding site [ion binding]; metal-binding site 338969013450 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338969013451 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 338969013452 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 338969013453 Protein of unknown function (DUF494); Region: DUF494; pfam04361 338969013454 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 338969013455 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 338969013456 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 338969013457 Protein export membrane protein; Region: SecD_SecF; pfam02355 338969013458 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 338969013459 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 338969013460 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 338969013461 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 338969013462 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 338969013463 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 338969013464 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 338969013465 dimer interface [polypeptide binding]; other site 338969013466 PYR/PP interface [polypeptide binding]; other site 338969013467 TPP binding site [chemical binding]; other site 338969013468 substrate binding site [chemical binding]; other site 338969013469 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 338969013470 TPP-binding site; other site 338969013471 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 338969013472 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338969013473 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 338969013474 EthD domain; Region: EthD; cl17553 338969013475 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338969013476 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 338969013477 DNA binding residues [nucleotide binding] 338969013478 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 338969013479 putative SAM binding site [chemical binding]; other site 338969013480 putative homodimer interface [polypeptide binding]; other site 338969013481 hypothetical protein; Provisional; Region: PRK14673 338969013482 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 338969013483 dimer interface [polypeptide binding]; other site 338969013484 active site 338969013485 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 338969013486 BON domain; Region: BON; pfam04972 338969013487 BON domain; Region: BON; pfam04972 338969013488 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338969013489 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 338969013490 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 338969013491 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 338969013492 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 338969013493 Walker A motif; other site 338969013494 ATP binding site [chemical binding]; other site 338969013495 Walker B motif; other site 338969013496 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 338969013497 Walker A motif; other site 338969013498 ATP binding site [chemical binding]; other site 338969013499 Walker B motif; other site 338969013500 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 338969013501 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338969013502 catalytic residue [active] 338969013503 S-adenosylmethionine synthetase; Validated; Region: PRK05250 338969013504 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 338969013505 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 338969013506 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 338969013507 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 338969013508 putative acyl-acceptor binding pocket; other site 338969013509 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 338969013510 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 338969013511 putative DNA binding site [nucleotide binding]; other site 338969013512 putative Zn2+ binding site [ion binding]; other site 338969013513 AsnC family; Region: AsnC_trans_reg; pfam01037 338969013514 ornithine cyclodeaminase; Validated; Region: PRK07589 338969013515 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 338969013516 Arginase family; Region: Arginase; cd09989 338969013517 active site 338969013518 Mn binding site [ion binding]; other site 338969013519 oligomer interface [polypeptide binding]; other site 338969013520 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 338969013521 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 338969013522 active site 2 [active] 338969013523 active site 1 [active] 338969013524 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 338969013525 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 338969013526 B12 binding site [chemical binding]; other site 338969013527 cobalt ligand [ion binding]; other site 338969013528 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 338969013529 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 338969013530 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 338969013531 NAD(P) binding site [chemical binding]; other site 338969013532 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 338969013533 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338969013534 FeS/SAM binding site; other site 338969013535 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 338969013536 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 338969013537 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; cl17220 338969013538 putative DNA binding site [nucleotide binding]; other site 338969013539 putative Zn2+ binding site [ion binding]; other site 338969013540 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 338969013541 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 338969013542 substrate binding pocket [chemical binding]; other site 338969013543 membrane-bound complex binding site; other site 338969013544 hinge residues; other site 338969013545 PAS fold; Region: PAS_4; pfam08448 338969013546 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969013547 putative active site [active] 338969013548 heme pocket [chemical binding]; other site 338969013549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969013550 metal binding site [ion binding]; metal-binding site 338969013551 active site 338969013552 I-site; other site 338969013553 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969013554 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 338969013555 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 338969013556 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 338969013557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969013558 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969013559 acyl-CoA synthetase; Validated; Region: PRK06178 338969013560 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969013561 acyl-activating enzyme (AAE) consensus motif; other site 338969013562 AMP binding site [chemical binding]; other site 338969013563 active site 338969013564 CoA binding site [chemical binding]; other site 338969013565 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 338969013566 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 338969013567 carboxyltransferase (CT) interaction site; other site 338969013568 biotinylation site [posttranslational modification]; other site 338969013569 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 338969013570 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 338969013571 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 338969013572 Predicted transcriptional regulator [Transcription]; Region: COG2378 338969013573 WYL domain; Region: WYL; pfam13280 338969013574 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 338969013575 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338969013576 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 338969013577 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 338969013578 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 338969013579 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 338969013580 BRO family, N-terminal domain; Region: Bro-N; smart01040 338969013581 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 338969013582 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 338969013583 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 338969013584 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 338969013585 active site residue [active] 338969013586 Protein of unknown function (DUF330); Region: DUF330; cl01135 338969013587 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 338969013588 mce related protein; Region: MCE; pfam02470 338969013589 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338969013590 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969013591 Walker A/P-loop; other site 338969013592 ATP binding site [chemical binding]; other site 338969013593 Q-loop/lid; other site 338969013594 ABC transporter signature motif; other site 338969013595 Walker B; other site 338969013596 D-loop; other site 338969013597 H-loop/switch region; other site 338969013598 Permease; Region: Permease; pfam02405 338969013599 choline dehydrogenase; Validated; Region: PRK02106 338969013600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969013601 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969013602 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 338969013603 hypothetical protein; Provisional; Region: PRK10621 338969013604 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 338969013605 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 338969013606 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 338969013607 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 338969013608 rod shape-determining protein MreC; Provisional; Region: PRK13922 338969013609 rod shape-determining protein MreB; Provisional; Region: PRK13927 338969013610 MreB and similar proteins; Region: MreB_like; cd10225 338969013611 nucleotide binding site [chemical binding]; other site 338969013612 Mg binding site [ion binding]; other site 338969013613 putative protofilament interaction site [polypeptide binding]; other site 338969013614 RodZ interaction site [polypeptide binding]; other site 338969013615 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 338969013616 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 338969013617 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 338969013618 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 338969013619 GatB domain; Region: GatB_Yqey; smart00845 338969013620 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338969013621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969013622 active site 338969013623 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 338969013624 putative active site [active] 338969013625 putative catalytic site [active] 338969013626 putative DNA binding site [nucleotide binding]; other site 338969013627 putative phosphate binding site [ion binding]; other site 338969013628 metal binding site A [ion binding]; metal-binding site 338969013629 putative AP binding site [nucleotide binding]; other site 338969013630 putative metal binding site B [ion binding]; other site 338969013631 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 338969013632 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 338969013633 ATP binding site [chemical binding]; other site 338969013634 putative Mg++ binding site [ion binding]; other site 338969013635 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 338969013636 nucleotide binding region [chemical binding]; other site 338969013637 ATP-binding site [chemical binding]; other site 338969013638 CHASE3 domain; Region: CHASE3; pfam05227 338969013639 PAS fold; Region: PAS_4; pfam08448 338969013640 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969013641 putative active site [active] 338969013642 heme pocket [chemical binding]; other site 338969013643 PAS domain; Region: PAS_8; pfam13188 338969013644 PAS fold; Region: PAS_4; pfam08448 338969013645 GAF domain; Region: GAF_2; pfam13185 338969013646 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969013647 metal binding site [ion binding]; metal-binding site 338969013648 active site 338969013649 I-site; other site 338969013650 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969013651 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 338969013652 lipoyl synthase; Provisional; Region: PRK05481 338969013653 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 338969013654 FeS/SAM binding site; other site 338969013655 lipoate-protein ligase B; Provisional; Region: PRK14346 338969013656 Protein of unknown function (DUF493); Region: DUF493; cl01102 338969013657 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 338969013658 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338969013659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338969013660 dimer interface [polypeptide binding]; other site 338969013661 putative CheW interface [polypeptide binding]; other site 338969013662 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338969013663 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338969013664 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338969013665 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 338969013666 Walker A motif; other site 338969013667 ATP binding site [chemical binding]; other site 338969013668 Walker B motif; other site 338969013669 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338969013670 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 338969013671 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 338969013672 phosphopeptide binding site; other site 338969013673 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; cd00143 338969013674 active site 338969013675 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 338969013676 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338969013677 Protein kinase domain; Region: Pkinase; pfam00069 338969013678 active site 338969013679 ATP binding site [chemical binding]; other site 338969013680 substrate binding site [chemical binding]; other site 338969013681 activation loop (A-loop); other site 338969013682 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 338969013683 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 338969013684 CoA binding domain; Region: CoA_binding; smart00881 338969013685 CoA-ligase; Region: Ligase_CoA; pfam00549 338969013686 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 338969013687 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 338969013688 CoA-ligase; Region: Ligase_CoA; pfam00549 338969013689 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 338969013690 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 338969013691 recombination regulator RecX; Reviewed; Region: recX; PRK00117 338969013692 recombinase A; Provisional; Region: recA; PRK09354 338969013693 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 338969013694 hexamer interface [polypeptide binding]; other site 338969013695 Walker A motif; other site 338969013696 ATP binding site [chemical binding]; other site 338969013697 Walker B motif; other site 338969013698 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969013699 MarR family; Region: MarR_2; pfam12802 338969013700 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338969013701 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 338969013702 active site 338969013703 phosphorylation site [posttranslational modification] 338969013704 intermolecular recognition site; other site 338969013705 dimerization interface [polypeptide binding]; other site 338969013706 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 338969013707 DNA binding site [nucleotide binding] 338969013708 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 338969013709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338969013710 HAMP domain; Region: HAMP; pfam00672 338969013711 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 338969013712 dimer interface [polypeptide binding]; other site 338969013713 phosphorylation site [posttranslational modification] 338969013714 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 338969013715 ATP binding site [chemical binding]; other site 338969013716 Mg2+ binding site [ion binding]; other site 338969013717 G-X-G motif; other site 338969013718 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 338969013719 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 338969013720 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 338969013721 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 338969013722 Proteins containing SET domain [General function prediction only]; Region: COG2940 338969013723 DNA topoisomerase III; Provisional; Region: PRK14724 338969013724 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 338969013725 active site 338969013726 putative interdomain interaction site [polypeptide binding]; other site 338969013727 putative metal-binding site [ion binding]; other site 338969013728 putative nucleotide binding site [chemical binding]; other site 338969013729 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 338969013730 domain I; other site 338969013731 DNA binding groove [nucleotide binding] 338969013732 phosphate binding site [ion binding]; other site 338969013733 domain II; other site 338969013734 domain III; other site 338969013735 nucleotide binding site [chemical binding]; other site 338969013736 catalytic site [active] 338969013737 domain IV; other site 338969013738 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 338969013739 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 338969013740 SWI complex, BAF60b domains; Region: SWIB; smart00151 338969013741 Uncharacterized conserved protein [Function unknown]; Region: COG3148 338969013742 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 338969013743 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 338969013744 substrate binding site [chemical binding]; other site 338969013745 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 338969013746 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969013747 acyl-activating enzyme (AAE) consensus motif; other site 338969013748 AMP binding site [chemical binding]; other site 338969013749 active site 338969013750 CoA binding site [chemical binding]; other site 338969013751 SEC-C motif; Region: SEC-C; cl19389 338969013752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 338969013753 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 338969013754 tetramer interface [polypeptide binding]; other site 338969013755 TPP-binding site [chemical binding]; other site 338969013756 heterodimer interface [polypeptide binding]; other site 338969013757 phosphorylation loop region [posttranslational modification] 338969013758 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 338969013759 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 338969013760 alpha subunit interface [polypeptide binding]; other site 338969013761 TPP binding site [chemical binding]; other site 338969013762 heterodimer interface [polypeptide binding]; other site 338969013763 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338969013764 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 338969013765 E3 interaction surface; other site 338969013766 lipoyl attachment site [posttranslational modification]; other site 338969013767 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 338969013768 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 338969013769 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 338969013770 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 338969013771 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338969013772 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338969013773 Walker A/P-loop; other site 338969013774 ATP binding site [chemical binding]; other site 338969013775 Q-loop/lid; other site 338969013776 ABC transporter signature motif; other site 338969013777 Walker B; other site 338969013778 D-loop; other site 338969013779 H-loop/switch region; other site 338969013780 NlpC/p60-like transpeptidase; Region: Transpep_BrtH; pfam14399 338969013781 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 338969013782 "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 338969013783 dimer interface [polypeptide binding]; other site 338969013784 active site 338969013785 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 338969013786 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 338969013787 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 338969013788 active site 338969013789 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338969013790 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 338969013791 active site 338969013792 acyl carrier protein; Provisional; Region: PRK09184 338969013793 Predicted membrane protein [Function unknown]; Region: COG4648 338969013794 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl19192 338969013795 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 338969013796 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 338969013797 NodB motif; other site 338969013798 active site 338969013799 catalytic site [active] 338969013800 metal binding site [ion binding]; metal-binding site 338969013801 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 338969013802 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 338969013803 dimer interface [polypeptide binding]; other site 338969013804 active site 338969013805 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 338969013806 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 338969013807 active site 2 [active] 338969013808 active site 1 [active] 338969013809 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 338969013810 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338969013811 AMP binding site [chemical binding]; other site 338969013812 active site 338969013813 acyl-activating enzyme (AAE) consensus motif; other site 338969013814 CoA binding site [chemical binding]; other site 338969013815 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 338969013816 active site 2 [active] 338969013817 active site 1 [active] 338969013818 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 338969013819 putative acyl-acceptor binding pocket; other site 338969013820 Predicted exporter [General function prediction only]; Region: COG4258 338969013821 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338969013822 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 338969013823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969013824 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 338969013825 NAD(P) binding site [chemical binding]; other site 338969013826 active site 338969013827 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 338969013828 putative acyl-acceptor binding pocket; other site 338969013829 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 338969013830 S-adenosylmethionine binding site [chemical binding]; other site 338969013831 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 338969013832 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 338969013833 Ligand binding site; other site 338969013834 Putative Catalytic site; other site 338969013835 DXD motif; other site 338969013836 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338969013837 putative acyl-acceptor binding pocket; other site 338969013838 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 338969013839 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 338969013840 dimer interface [polypeptide binding]; other site 338969013841 active site 338969013842 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 338969013843 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 338969013844 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 338969013845 dimer interface [polypeptide binding]; other site 338969013846 active site 338969013847 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 338969013848 active site 2 [active] 338969013849 active site 1 [active] 338969013850 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 338969013851 BON domain; Region: BON; pfam04972 338969013852 Nuclease-related domain; Region: NERD; pfam08378 338969013853 AAA domain; Region: AAA_22; pfam13401 338969013854 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338969013855 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 338969013856 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 338969013857 HsdM N-terminal domain; Region: HsdM_N; pfam12161 338969013858 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338969013859 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338969013860 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 338969013861 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338969013862 Abortive infection C-terminus; Region: Abi_C; pfam14355 338969013863 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 338969013864 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 338969013865 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 338969013866 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 338969013867 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 338969013868 ATP binding site [chemical binding]; other site 338969013869 putative Mg++ binding site [ion binding]; other site 338969013870 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 338969013871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969013872 LysR family transcriptional regulator; Provisional; Region: PRK14997 338969013873 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 338969013874 putative effector binding pocket; other site 338969013875 dimerization interface [polypeptide binding]; other site 338969013876 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 338969013877 dimer interface [polypeptide binding]; other site 338969013878 FMN binding site [chemical binding]; other site 338969013879 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 338969013880 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 338969013881 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 338969013882 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 338969013883 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 338969013884 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 338969013885 C-terminal domain interface [polypeptide binding]; other site 338969013886 GSH binding site (G-site) [chemical binding]; other site 338969013887 dimer interface [polypeptide binding]; other site 338969013888 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 338969013889 dimer interface [polypeptide binding]; other site 338969013890 N-terminal domain interface [polypeptide binding]; other site 338969013891 Predicted permeases [General function prediction only]; Region: RarD; COG2962 338969013892 EamA-like transporter family; Region: EamA; pfam00892 338969013893 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 338969013894 substrate binding site [chemical binding]; other site 338969013895 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 338969013896 substrate binding site [chemical binding]; other site 338969013897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 338969013898 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 338969013899 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 338969013900 active site 338969013901 catalytic tetrad [active] 338969013902 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 338969013903 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 338969013904 DNA binding residues [nucleotide binding] 338969013905 putative dimer interface [polypeptide binding]; other site 338969013906 YCII-related domain; Region: YCII; cl00999 338969013907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 338969013908 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_8; cd07246 338969013909 putative dimer interface [polypeptide binding]; other site 338969013910 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 338969013911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969013912 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 338969013913 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 338969013914 dimerization interface [polypeptide binding]; other site 338969013915 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969013916 metal binding site [ion binding]; metal-binding site 338969013917 active site 338969013918 I-site; other site 338969013919 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 338969013920 MASE2 domain; Region: MASE2; pfam05230 338969013921 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969013922 metal binding site [ion binding]; metal-binding site 338969013923 active site 338969013924 I-site; other site 338969013925 Hemerythrin; Region: Hemerythrin; cd12107 338969013926 Fe binding site [ion binding]; other site 338969013927 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 338969013928 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 338969013929 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 338969013930 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 338969013931 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 338969013932 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 338969013933 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 338969013934 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 338969013935 O-Antigen ligase; Region: Wzy_C; pfam04932 338969013936 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 338969013937 Fic family protein [Function unknown]; Region: COG3177 338969013938 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 338969013939 Fic/DOC family; Region: Fic; pfam02661 338969013940 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 338969013941 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 338969013942 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 338969013943 active site 338969013944 LssY C-terminus; Region: LssY_C; pfam14067 338969013945 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 338969013946 trimer interface [polypeptide binding]; other site 338969013947 dimer interface [polypeptide binding]; other site 338969013948 putative active site [active] 338969013949 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 338969013950 Peptidase family M48; Region: Peptidase_M48; cl12018 338969013951 Predicted membrane protein [Function unknown]; Region: COG1950 338969013952 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 338969013953 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 338969013954 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 338969013955 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 338969013956 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 338969013957 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 338969013958 NAD(P) binding site [chemical binding]; other site 338969013959 homotetramer interface [polypeptide binding]; other site 338969013960 homodimer interface [polypeptide binding]; other site 338969013961 active site 338969013962 YaeQ protein; Region: YaeQ; pfam07152 338969013963 adenylosuccinate lyase; Provisional; Region: PRK09285 338969013964 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 338969013965 tetramer interface [polypeptide binding]; other site 338969013966 active site 338969013967 putative glutathione S-transferase; Provisional; Region: PRK10357 338969013968 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 338969013969 putative C-terminal domain interface [polypeptide binding]; other site 338969013970 putative GSH binding site (G-site) [chemical binding]; other site 338969013971 putative dimer interface [polypeptide binding]; other site 338969013972 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 338969013973 dimer interface [polypeptide binding]; other site 338969013974 N-terminal domain interface [polypeptide binding]; other site 338969013975 putative substrate binding pocket (H-site) [chemical binding]; other site 338969013976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338969013977 Zn2+ binding site [ion binding]; other site 338969013978 Mg2+ binding site [ion binding]; other site 338969013979 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 338969013980 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338969013981 active site 338969013982 nucleotide binding site [chemical binding]; other site 338969013983 HIGH motif; other site 338969013984 KMSKS motif; other site 338969013985 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 338969013986 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 338969013987 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969013988 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 338969013989 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 338969013990 hexamer interface [polypeptide binding]; other site 338969013991 ligand binding site [chemical binding]; other site 338969013992 putative active site [active] 338969013993 NAD(P) binding site [chemical binding]; other site 338969013994 HAMP domain; Region: HAMP; pfam00672 338969013995 PAS domain S-box; Region: sensory_box; TIGR00229 338969013996 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969013997 putative active site [active] 338969013998 heme pocket [chemical binding]; other site 338969013999 PAS domain; Region: PAS_9; pfam13426 338969014000 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969014001 putative active site [active] 338969014002 heme pocket [chemical binding]; other site 338969014003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338969014004 metal binding site [ion binding]; metal-binding site 338969014005 active site 338969014006 I-site; other site 338969014007 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 338969014008 RIO kinase family, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside...; Region: RIO; cl17248 338969014009 ATP binding site [chemical binding]; other site 338969014010 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 338969014011 Transglycosylase; Region: Transgly; pfam00912 338969014012 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 338969014013 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 338969014014 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 338969014015 active site 338969014016 metal binding site [ion binding]; metal-binding site 338969014017 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969014018 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969014019 Transcriptional regulator, TetR, C-terminal; Region: TetR_C_9; pfam14514 338969014020 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338969014021 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338969014022 Walker A/P-loop; other site 338969014023 ATP binding site [chemical binding]; other site 338969014024 Q-loop/lid; other site 338969014025 ABC transporter signature motif; other site 338969014026 Walker B; other site 338969014027 D-loop; other site 338969014028 H-loop/switch region; other site 338969014029 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 338969014030 TM-ABC transporter signature motif; other site 338969014031 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 338969014032 TM-ABC transporter signature motif; other site 338969014033 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338969014034 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 338969014035 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338969014036 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338969014037 Walker A/P-loop; other site 338969014038 ATP binding site [chemical binding]; other site 338969014039 Q-loop/lid; other site 338969014040 ABC transporter signature motif; other site 338969014041 Walker B; other site 338969014042 D-loop; other site 338969014043 H-loop/switch region; other site 338969014044 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 338969014045 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 338969014046 acyl-activating enzyme (AAE) consensus motif; other site 338969014047 putative AMP binding site [chemical binding]; other site 338969014048 putative active site [active] 338969014049 putative CoA binding site [chemical binding]; other site 338969014050 enoyl-CoA hydratase; Provisional; Region: PRK06688 338969014051 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 338969014052 substrate binding site [chemical binding]; other site 338969014053 oxyanion hole (OAH) forming residues; other site 338969014054 trimer interface [polypeptide binding]; other site 338969014055 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969014056 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 338969014057 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969014058 FAD binding site [chemical binding]; other site 338969014059 substrate binding pocket [chemical binding]; other site 338969014060 catalytic base [active] 338969014061 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 338969014062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338969014063 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 338969014064 dimerization interface [polypeptide binding]; other site 338969014065 Flavodoxin domain; Region: Flavodoxin_5; cl17428 338969014066 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 338969014067 heme-binding residues [chemical binding]; other site 338969014068 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 338969014069 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 338969014070 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 338969014071 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 338969014072 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 338969014073 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 338969014074 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 338969014075 Cytochrome c; Region: Cytochrom_C; cl11414 338969014076 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 338969014077 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 338969014078 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 338969014079 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 338969014080 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 338969014081 decaheme-associated outer membrane protein, MtrB/PioB family; Region: OMP_MtrB_PioB; TIGR03509 338969014082 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 338969014083 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 338969014084 Cytochrome c3; Region: Cytochrom_c3_2; pfam14537 338969014085 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969014086 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338969014087 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 338969014088 PT repeat; Region: PT; pfam04886 338969014089 Cytochrome c; Region: Cytochrom_C; cl11414 338969014090 Cytochrome c; Region: Cytochrom_C; cl11414 338969014091 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 338969014092 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 338969014093 hydrogenase 2 small subunit; Provisional; Region: PRK10468 338969014094 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 338969014095 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 338969014096 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 338969014097 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 338969014098 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 338969014099 hydrogenase 2 large subunit; Provisional; Region: PRK10467 338969014100 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 338969014101 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 338969014102 putative substrate-binding site; other site 338969014103 nickel binding site [ion binding]; other site 338969014104 HupF/HypC family; Region: HupF_HypC; pfam01455 338969014105 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 338969014106 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 338969014107 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 338969014108 G1 box; other site 338969014109 GTP/Mg2+ binding site [chemical binding]; other site 338969014110 G2 box; other site 338969014111 Switch I region; other site 338969014112 G3 box; other site 338969014113 Switch II region; other site 338969014114 G4 box; other site 338969014115 G5 box; other site 338969014116 Acylphosphatase; Region: Acylphosphatase; pfam00708 338969014117 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 338969014118 HypF finger; Region: zf-HYPF; pfam07503 338969014119 HypF finger; Region: zf-HYPF; pfam07503 338969014120 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 338969014121 HupF/HypC family; Region: HupF_HypC; pfam01455 338969014122 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 338969014123 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 338969014124 dimerization interface [polypeptide binding]; other site 338969014125 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 338969014126 ATP binding site [chemical binding]; other site 338969014127 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 338969014128 putative active site [active] 338969014129 putative substrate binding site [chemical binding]; other site 338969014130 putative cosubstrate binding site; other site 338969014131 catalytic site [active] 338969014132 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 338969014133 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 338969014134 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 338969014135 substrate binding site [chemical binding]; other site 338969014136 oxyanion hole (OAH) forming residues; other site 338969014137 trimer interface [polypeptide binding]; other site 338969014138 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338969014139 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 338969014140 active site 338969014141 phosphorylation site [posttranslational modification] 338969014142 intermolecular recognition site; other site 338969014143 dimerization interface [polypeptide binding]; other site 338969014144 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 338969014145 Walker A motif; other site 338969014146 ATP binding site [chemical binding]; other site 338969014147 Walker B motif; other site 338969014148 arginine finger; other site 338969014149 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338969014150 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338969014151 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338969014152 WHG domain; Region: WHG; pfam13305 338969014153 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 338969014154 MMPL family; Region: MMPL; cl14618 338969014155 MMPL family; Region: MMPL; cl14618 338969014156 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338969014157 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 338969014158 HlyD family secretion protein; Region: HlyD_3; pfam13437 338969014159 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338969014160 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 338969014161 Outer membrane efflux protein; Region: OEP; pfam02321 338969014162 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 338969014163 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 338969014164 dimer interface [polypeptide binding]; other site 338969014165 Uncharacterized conserved protein [Function unknown]; Region: COG3791 338969014166 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 338969014167 dimer interface [polypeptide binding]; other site 338969014168 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 338969014169 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 338969014170 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 338969014171 transketolase; Reviewed; Region: PRK12753 338969014172 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 338969014173 TPP-binding site [chemical binding]; other site 338969014174 dimer interface [polypeptide binding]; other site 338969014175 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 338969014176 PYR/PP interface [polypeptide binding]; other site 338969014177 dimer interface [polypeptide binding]; other site 338969014178 TPP binding site [chemical binding]; other site 338969014179 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338969014180 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 338969014181 active site 338969014182 FMN binding site [chemical binding]; other site 338969014183 substrate binding site [chemical binding]; other site 338969014184 homotetramer interface [polypeptide binding]; other site 338969014185 catalytic residue [active] 338969014186 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 338969014187 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 338969014188 CoenzymeA binding site [chemical binding]; other site 338969014189 subunit interaction site [polypeptide binding]; other site 338969014190 PHB binding site; other site 338969014191 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969014192 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; cl17220 338969014193 putative DNA binding site [nucleotide binding]; other site 338969014194 putative Zn2+ binding site [ion binding]; other site 338969014195 Protein of unknown function, DUF488; Region: DUF488; cl01246 338969014196 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 338969014197 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 338969014198 FeS/SAM binding site; other site 338969014199 coenzyme F420 hydrogenase, subunit alpha; Region: frhA; TIGR03295 338969014200 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl19174 338969014201 4Fe-4S dicluster domain; Region: Fer4_21; pfam14697 338969014202 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; cl19102 338969014203 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 338969014204 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 338969014205 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 338969014206 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338969014207 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 338969014208 putative active site [active] 338969014209 heme pocket [chemical binding]; other site 338969014210 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 338969014211 dimer interface [polypeptide binding]; other site 338969014212 phosphorylation site [posttranslational modification] 338969014213 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 338969014214 ATP binding site [chemical binding]; other site 338969014215 Mg2+ binding site [ion binding]; other site 338969014216 G-X-G motif; other site 338969014217 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 338969014218 Cu(I) binding site [ion binding]; other site 338969014219 Cytochrome c; Region: Cytochrom_C; pfam00034 338969014220 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 338969014221 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 338969014222 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 338969014223 D-pathway; other site 338969014224 Low-spin heme binding site [chemical binding]; other site 338969014225 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 338969014226 Putative water exit pathway; other site 338969014227 Binuclear center (active site) [active] 338969014228 K-pathway; other site 338969014229 Putative proton exit pathway; other site 338969014230 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 338969014231 heme-binding site [chemical binding]; other site 338969014232 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 338969014233 putative uracil binding site [chemical binding]; other site 338969014234 putative active site [active] 338969014235 Uncharacterized conserved protein [Function unknown]; Region: COG3189 338969014236 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 338969014237 Transcriptional regulators [Transcription]; Region: MarR; COG1846 338969014238 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 338969014239 RNA polymerase sigma factor; Provisional; Region: PRK11922 338969014240 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969014241 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 338969014242 DNA binding residues [nucleotide binding] 338969014243 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 338969014244 dinuclear metal binding motif [ion binding]; other site 338969014245 Cytochrome c; Region: Cytochrom_C; cl11414 338969014246 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 338969014247 homodimer interface [polypeptide binding]; other site 338969014248 substrate-cofactor binding pocket; other site 338969014249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338969014250 catalytic residue [active] 338969014251 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 338969014252 gating phenylalanine in ion channel; other site 338969014253 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 338969014254 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 338969014255 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 338969014256 putative active site [active] 338969014257 putative metal binding site [ion binding]; other site 338969014258 Ferredoxin [Energy production and conversion]; Region: COG1146 338969014259 4Fe-4S binding domain; Region: Fer4; pfam00037 338969014260 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 338969014261 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 338969014262 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 338969014263 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338969014264 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 338969014265 DNA binding residues [nucleotide binding] 338969014266 Putative zinc-finger; Region: zf-HC2; pfam13490 338969014267 Heavy-metal resistance; Region: Metal_resist; pfam13801 338969014268 NnrS protein; Region: NnrS; pfam05940 338969014269 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 338969014270 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 338969014271 active site 338969014272 N-formylglutamate amidohydrolase; Region: FGase; cl01522 338969014273 HutD; Region: HutD; pfam05962 338969014274 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 338969014275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969014276 DNA-binding site [nucleotide binding]; DNA binding site 338969014277 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 338969014278 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 338969014279 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 338969014280 Walker A/P-loop; other site 338969014281 ATP binding site [chemical binding]; other site 338969014282 Q-loop/lid; other site 338969014283 ABC transporter signature motif; other site 338969014284 Walker B; other site 338969014285 D-loop; other site 338969014286 H-loop/switch region; other site 338969014287 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 338969014288 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 338969014289 dimer interface [polypeptide binding]; other site 338969014290 conserved gate region; other site 338969014291 putative PBP binding loops; other site 338969014292 ABC-ATPase subunit interface; other site 338969014293 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 338969014294 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338969014295 substrate binding pocket [chemical binding]; other site 338969014296 membrane-bound complex binding site; other site 338969014297 hinge residues; other site 338969014298 Transcriptional regulator [Transcription]; Region: IclR; COG1414 338969014299 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 338969014300 putative DNA binding site [nucleotide binding]; other site 338969014301 putative Zn2+ binding site [ion binding]; other site 338969014302 Bacterial transcriptional regulator; Region: IclR; pfam01614 338969014303 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 338969014304 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 338969014305 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 338969014306 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; cl19102 338969014307 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338969014308 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cl00540 338969014309 tetramerization interface [polypeptide binding]; other site 338969014310 active site 338969014311 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 338969014312 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 338969014313 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 338969014314 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 338969014315 Ligand binding site [chemical binding]; other site 338969014316 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969014317 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969014318 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969014319 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969014320 active site 338969014321 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 338969014322 putative active site [active] 338969014323 putative catalytic site [active] 338969014324 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 338969014325 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 338969014326 DctM-like transporters; Region: DctM; pfam06808 338969014327 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 338969014328 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 338969014329 putative substrate translocation pore; other site 338969014330 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969014331 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 338969014332 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 338969014333 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 338969014334 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 338969014335 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 338969014336 putative active site [active] 338969014337 putative catalytic site [active] 338969014338 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969014339 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 338969014340 active site 338969014341 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 338969014342 hypothetical protein; Provisional; Region: PRK08317 338969014343 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 338969014344 S-adenosylmethionine binding site [chemical binding]; other site 338969014345 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 338969014346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338969014347 DNA-binding site [nucleotide binding]; DNA binding site 338969014348 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 338969014349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 338969014350 DNA-binding site [nucleotide binding]; DNA binding site 338969014351 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 338969014352 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 338969014353 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969014354 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338969014355 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 338969014356 putative substrate translocation pore; other site 338969014357 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 338969014358 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 338969014359 catalytic triad [active] 338969014360 conserved cis-peptide bond; other site 338969014361 DctM-like transporters; Region: DctM; pfam06808 338969014362 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 338969014363 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 338969014364 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 338969014365 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 338969014366 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 338969014367 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 338969014368 active site 338969014369 catalytic residues [active] 338969014370 metal binding site [ion binding]; metal-binding site 338969014371 transposase/IS protein; Provisional; Region: PRK09183 338969014372 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 338969014373 Walker A motif; other site 338969014374 ATP binding site [chemical binding]; other site 338969014375 Walker B motif; other site 338969014376 arginine finger; other site 338969014377 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 338969014378 Helix-turn-helix domain; Region: HTH_38; pfam13936 338969014379 Homeodomain-like domain; Region: HTH_32; pfam13565 338969014380 Integrase core domain; Region: rve; pfam00665 338969014381 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 338969014382 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 338969014383 acyl-activating enzyme (AAE) consensus motif; other site 338969014384 putative AMP binding site [chemical binding]; other site 338969014385 putative active site [active] 338969014386 putative CoA binding site [chemical binding]; other site 338969014387 lipid-transfer protein; Provisional; Region: PRK08256 338969014388 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 338969014389 active site 338969014390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338969014391 NAD(P) binding site [chemical binding]; other site 338969014392 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 338969014393 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 338969014394 active site 338969014395 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 338969014396 AAA ATPase domain; Region: AAA_16; pfam13191 338969014397 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 338969014398 DNA binding residues [nucleotide binding] 338969014399 dimerization interface [polypeptide binding]; other site 338969014400 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; cl18944 338969014401 Transposase; Region: DEDD_Tnp_IS110; pfam01548 338969014402 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 338969014403 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 338969014404 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 338969014405 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 338969014406 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 338969014407 alphaNTD homodimer interface [polypeptide binding]; other site 338969014408 alphaNTD - beta interaction site [polypeptide binding]; other site 338969014409 alphaNTD - beta' interaction site [polypeptide binding]; other site 338969014410 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 338969014411 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 338969014412 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 338969014413 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 338969014414 RNA binding surface [nucleotide binding]; other site 338969014415 30S ribosomal protein S11; Validated; Region: PRK05309 338969014416 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 338969014417 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 338969014418 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 338969014419 rRNA binding site [nucleotide binding]; other site 338969014420 predicted 30S ribosome binding site; other site 338969014421 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 338969014422 SecY translocase; Region: SecY; pfam00344 338969014423 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 338969014424 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 338969014425 23S rRNA binding site [nucleotide binding]; other site 338969014426 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 338969014427 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 338969014428 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 338969014429 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 338969014430 5S rRNA interface [nucleotide binding]; other site 338969014431 L27 interface [polypeptide binding]; other site 338969014432 23S rRNA interface [nucleotide binding]; other site 338969014433 L5 interface [polypeptide binding]; other site 338969014434 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 338969014435 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 338969014436 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 338969014437 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 338969014438 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 338969014439 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 338969014440 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 338969014441 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 338969014442 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 338969014443 RNA binding site [nucleotide binding]; other site 338969014444 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 338969014445 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 338969014446 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 338969014447 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 338969014448 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 338969014449 active site 338969014450 motif I; other site 338969014451 motif II; other site 338969014452 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 338969014453 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 338969014454 putative active site [active] 338969014455 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 338969014456 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 338969014457 putative cation:proton antiport protein; Provisional; Region: PRK10669 338969014458 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 338969014459 TrkA-N domain; Region: TrkA_N; pfam02254 338969014460 TrkA-C domain; Region: TrkA_C; pfam02080 338969014461 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338969014462 active site 338969014463 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 338969014464 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 338969014465 trmE is a tRNA modification GTPase; Region: trmE; cd04164 338969014466 G1 box; other site 338969014467 GTP/Mg2+ binding site [chemical binding]; other site 338969014468 Switch I region; other site 338969014469 G2 box; other site 338969014470 Switch II region; other site 338969014471 G3 box; other site 338969014472 G4 box; other site 338969014473 G5 box; other site 338969014474 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 338969014475 membrane protein insertase; Provisional; Region: PRK01318 338969014476 YidC periplasmic domain; Region: YidC_periplas; pfam14849 338969014477 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 338969014478 hypothetical protein; Provisional; Region: PRK14389 338969014479 Ribonuclease P; Region: Ribonuclease_P; cl00457 338969014480 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399