-- dump date 20111121_010150 -- class Genbank::misc_feature -- table misc_feature_note -- id note 232721000001 Peptidase family M48; Region: Peptidase_M48; cl12018 232721000002 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 232721000003 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 232721000004 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 232721000005 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14877 232721000006 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14877 232721000007 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 232721000008 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 232721000009 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 232721000010 TraU protein; Region: TraU; cl06067 232721000011 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 232721000012 Peptidase S26; Region: Peptidase_S26; pfam10502 232721000013 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cl10465 232721000014 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 232721000015 M3; Region: M3; pfam09213 232721000016 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 232721000017 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 232721000018 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...; Region: DsbA_DsbC_DsbG; cd03020 232721000019 dimerization domain [polypeptide binding]; other site 232721000020 dimer interface [polypeptide binding]; other site 232721000021 catalytic residues [active] 232721000022 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 232721000023 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 232721000024 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 232721000025 TraK protein; Region: TraK; pfam06586 232721000026 TraE protein; Region: TraE; cl05060 232721000027 TraL protein; Region: TraL; cl06278 232721000028 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 catalyze...; Region: LT_GEWL; cd00254 232721000029 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721000030 catalytic residue [active] 232721000031 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 232721000032 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 232721000033 active site 232721000034 phosphorylation site [posttranslational modification] 232721000035 intermolecular recognition site; other site 232721000036 dimerization interface [polypeptide binding]; other site 232721000037 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...; Region: LuxR_C_like; cl10457 232721000038 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 232721000039 Histidine kinase; Region: HisKA_3; pfam07730 232721000040 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 232721000041 ATP binding site [chemical binding]; other site 232721000042 Mg2+ binding site [ion binding]; other site 232721000043 G-X-G motif; other site 232721000044 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 232721000045 YheO-like PAS domain; Region: PAS_6; pfam08348 232721000046 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 232721000047 TrwC relaxase; Region: TrwC; cl08490 232721000048 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 232721000049 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721000050 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 232721000051 Walker A motif; other site 232721000052 ATP binding site [chemical binding]; other site 232721000053 Walker B motif; other site 232721000054 multiple promoter invertase; Provisional; Region: mpi; PRK13413 232721000055 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 232721000056 catalytic residues [active] 232721000057 catalytic nucleophile [active] 232721000058 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 232721000059 MPN+ (JAMM) motif; other site 232721000060 Zinc-binding site [ion binding]; other site 232721000061 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 232721000062 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 232721000063 S-adenosylmethionine binding site [chemical binding]; other site 232721000064 Domain of unknown function (DUF932); Region: DUF932; cl12129 232721000065 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 232721000066 dimer interface [polypeptide binding]; other site 232721000067 ssDNA binding site [nucleotide binding]; other site 232721000068 tetramer (dimer of dimers) interface [polypeptide binding]; other site 232721000069 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 232721000070 putative active site [active] 232721000071 catalytic site [active] 232721000072 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; cl12011 232721000073 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 232721000074 cofactor binding site; other site 232721000075 DNA binding site [nucleotide binding] 232721000076 substrate interaction site [chemical binding]; other site 232721000077 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 232721000078 active site 232721000079 substrate binding site [chemical binding]; other site 232721000080 catalytic site [active] 232721000081 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 232721000082 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 232721000083 Replication initiator protein A; Region: RPA; cl02339 232721000084 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721000085 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 232721000086 ParB-like nuclease domain; Region: ParBc; cl02129 232721000087 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 232721000088 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...; Region: ParA; cd02042 232721000089 P-loop; other site 232721000090 Magnesium ion binding site [ion binding]; other site 232721000091 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...; Region: ParA; cd02042 232721000092 Magnesium ion binding site [ion binding]; other site 232721000093 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721000094 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 232721000095 catalytic motif [active] 232721000096 Catalytic residue [active] 232721000097 Nuclease-related domain; Region: NERD; pfam08378 232721000098 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 232721000099 putative homodimer interface [polypeptide binding]; other site 232721000100 putative active site [active] 232721000101 catalytic site [active] 232721000102 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 232721000103 ligand binding site [chemical binding]; other site 232721000104 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 232721000105 IHF dimer interface [polypeptide binding]; other site 232721000106 IHF - DNA interface [nucleotide binding]; other site 232721000107 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 232721000108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721000109 Fic/DOC family; Region: Fic; cl00960 232721000110 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 232721000111 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 232721000112 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 232721000113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 232721000114 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...; Region: TOPRIM_primases; cd01029 232721000115 active site 232721000116 metal binding site [ion binding]; metal-binding site 232721000117 interdomain interaction site; other site 232721000118 multiple promoter invertase; Provisional; Region: mpi; PRK13413 232721000119 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 232721000120 catalytic residues [active] 232721000121 catalytic nucleophile [active] 232721000122 Presynaptic Site I dimer interface [polypeptide binding]; other site 232721000123 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 232721000124 Synaptic Flat tetramer interface [polypeptide binding]; other site 232721000125 Synaptic Site I dimer interface [polypeptide binding]; other site 232721000126 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 232721000127 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 232721000128 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 232721000129 cofactor binding site; other site 232721000130 DNA binding site [nucleotide binding] 232721000131 substrate interaction site [chemical binding]; other site 232721000132 NgoMIV restriction enzyme; Region: NgoMIV_restric; pfam09015 232721000133 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 232721000134 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 232721000135 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 232721000136 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 232721000137 ligand binding site [chemical binding]; other site 232721000138 TraX protein; Region: TraX; cl05434 232721000139 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 catalyze...; Region: LT_GEWL; cd00254 232721000140 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721000141 catalytic residue [active] 232721000142 TrbM; Region: TrbM; cl06455 232721000143 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 232721000144 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 232721000145 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 232721000146 conjugal transfer protein TrbH; Provisional; Region: PRK13883 232721000147 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 232721000148 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 232721000149 VirB7 interaction site; other site 232721000150 VirB8 protein; Region: VirB8; cl01500 232721000151 conjugal transfer protein TrbE; Provisional; Region: PRK13891 232721000152 VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 232721000153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721000154 Walker B; other site 232721000155 D-loop; other site 232721000156 H-loop/switch region; other site 232721000157 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 232721000158 TrbC/VIRB2 family; Region: TrbC; cl01583 232721000159 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 232721000160 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...; Region: VirB11-like_ATPase; cd01130 232721000161 ATP binding site [chemical binding]; other site 232721000162 Walker A motif; other site 232721000163 hexamer interface [polypeptide binding]; other site 232721000164 Walker B motif; other site 232721000165 conjugal transfer protein TrbA; Provisional; Region: PRK13890 232721000166 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721000167 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 232721000168 dimer interface [polypeptide binding]; other site 232721000169 ssDNA binding site [nucleotide binding]; other site 232721000170 tetramer (dimer of dimers) interface [polypeptide binding]; other site 232721000171 Replication initiator protein A; Region: RPA; cl02339 232721000172 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721000173 Putative transposase; Region: Y2_Tnp; pfam04986 232721000174 Putative transposase; Region: Y2_Tnp; pfam04986 232721000175 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 232721000176 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721000177 Putative transposase; Region: Y2_Tnp; pfam04986 232721000178 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 232721000179 classical (c) SDRs; Region: SDR_c; cd05233 232721000180 NAD(P) binding site [chemical binding]; other site 232721000181 active site 232721000182 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 232721000183 RelB antitoxin; Region: RelB; cl01171 232721000184 Antirestriction protein; Region: Antirestrict; pfam03230 232721000185 Protein of unknown function (DUF2761); Region: DUF2761; pfam10959 232721000186 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...; Region: ParA; cd02042 232721000187 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 232721000188 P-loop; other site 232721000189 Magnesium ion binding site [ion binding]; other site 232721000190 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...; Region: ParA; cd02042 232721000191 Magnesium ion binding site [ion binding]; other site 232721000192 ParB-like partition proteins; Region: parB_part; TIGR00180 232721000193 ParB-like nuclease domain; Region: ParBc; cl02129 232721000194 KorB domain; Region: KorB; pfam08535 232721000195 KorB C-terminal beta-barrel domain; Region: KorB_C; pfam06613 232721000196 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 232721000197 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 232721000198 Transcriptional activator TraM; Region: Activator-TraM; cl11943 232721000199 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 232721000200 P-loop; other site 232721000201 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 232721000202 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 232721000203 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 232721000204 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 232721000205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721000206 Walker A motif; other site 232721000207 ATP binding site [chemical binding]; other site 232721000208 Walker B motif; other site 232721000209 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cl10465 232721000210 Peptidase S26; Region: Peptidase_S26; pfam10502 232721000211 DNA topoisomerase III; Provisional; Region: PRK07726 232721000212 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 232721000213 active site 232721000214 putative interdomain interaction site [polypeptide binding]; other site 232721000215 putative metal-binding site [ion binding]; other site 232721000216 putative nucleotide binding site [chemical binding]; other site 232721000217 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...; Region: TOP1Ac; cd00186 232721000218 domain I; other site 232721000219 DNA binding groove [nucleotide binding] 232721000220 phosphate binding site [ion binding]; other site 232721000221 domain II; other site 232721000222 domain III; other site 232721000223 nucleotide binding site [chemical binding]; other site 232721000224 catalytic site [active] 232721000225 domain IV; other site 232721000226 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 232721000227 NlpC/P60 family; Region: NLPC_P60; cl11438 232721000228 NeuB family; Region: NeuB; cl00496 232721000229 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 232721000230 PAS domain S-box; Region: sensory_box; TIGR00229 232721000231 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 232721000232 putative active site [active] 232721000233 heme pocket [chemical binding]; other site 232721000234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721000235 metal binding site [ion binding]; metal-binding site 232721000236 active site 232721000237 I-site; other site 232721000238 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 232721000239 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000240 Transcriptional regulator [Transcription]; Region: IclR; COG1414 232721000241 Bacterial transcriptional regulator; Region: IclR; pfam01614 232721000242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000243 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 232721000244 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 232721000245 Domain of Unknown Function (DUF1520); Region: DUF1520; pfam07480 232721000246 Putative exonuclease, RdgC; Region: RdgC; cl01122 232721000247 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 232721000248 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 232721000249 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 232721000250 PAS fold; Region: PAS_7; pfam12860 232721000251 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 trans-...; Region: HisKA; cd00082 232721000252 dimer interface [polypeptide binding]; other site 232721000253 phosphorylation site [posttranslational modification] 232721000254 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 232721000255 ATP binding site [chemical binding]; other site 232721000256 Mg2+ binding site [ion binding]; other site 232721000257 G-X-G motif; other site 232721000258 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 232721000259 Response regulator receiver domain; Region: Response_reg; pfam00072 232721000260 active site 232721000261 phosphorylation site [posttranslational modification] 232721000262 intermolecular recognition site; other site 232721000263 dimerization interface [polypeptide binding]; other site 232721000264 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 232721000265 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 232721000266 active site 232721000267 phosphorylation site [posttranslational modification] 232721000268 intermolecular recognition site; other site 232721000269 dimerization interface [polypeptide binding]; other site 232721000270 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...; Region: LuxR_C_like; cd06170 232721000271 DNA binding residues [nucleotide binding] 232721000272 dimerization interface [polypeptide binding]; other site 232721000273 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 232721000274 Nucleoside recognition; Region: Gate; cl00486 232721000275 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 232721000276 beta-ketothiolase; Provisional; Region: PRK09051 232721000277 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 232721000278 dimer interface [polypeptide binding]; other site 232721000279 active site 232721000280 Protein of unknown function, DUF488; Region: DUF488; cl01246 232721000281 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 232721000282 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 232721000283 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 232721000284 DNA binding residues [nucleotide binding] 232721000285 dimer interface [polypeptide binding]; other site 232721000286 copper binding site [ion binding]; other site 232721000287 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 232721000288 metal-binding site [ion binding] 232721000289 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721000290 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 232721000291 metal-binding site [ion binding] 232721000292 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721000293 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 232721000294 motif II; other site 232721000295 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721000296 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721000297 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721000298 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 232721000299 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 232721000300 FMN binding site [chemical binding]; other site 232721000301 active site 232721000302 substrate binding site [chemical binding]; other site 232721000303 catalytic residue [active] 232721000304 glutathionine S-transferase; Provisional; Region: PRK10542 232721000305 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 232721000306 C-terminal domain interface [polypeptide binding]; other site 232721000307 GSH binding site (G-site) [chemical binding]; other site 232721000308 dimer interface [polypeptide binding]; other site 232721000309 GST_C 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_C_Beta; cd03188 232721000310 dimer interface [polypeptide binding]; other site 232721000311 N-terminal domain interface [polypeptide binding]; other site 232721000312 substrate binding pocket (H-site) [chemical binding]; other site 232721000313 Flagellin N-methylase; Region: FliB; cl00497 232721000314 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 232721000315 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 232721000316 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 232721000317 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 232721000318 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; cl12011 232721000319 LysE type translocator; Region: LysE; cl00565 232721000320 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 232721000321 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...; Region: ParA; cd02042 232721000322 P-loop; other site 232721000323 Magnesium ion binding site [ion binding]; other site 232721000324 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...; Region: ParA; cd02042 232721000325 Magnesium ion binding site [ion binding]; other site 232721000326 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721000327 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 232721000328 ParB-like nuclease domain; Region: ParBc; cl02129 232721000329 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; cl12011 232721000330 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 232721000331 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 232721000332 Cytochrome c; Region: Cytochrom_C; cl11414 232721000333 sulfite oxidase; Provisional; Region: PLN00177 232721000334 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 232721000335 Moco binding site; other site 232721000336 metal coordination site [ion binding]; other site 232721000337 dimerization interface [polypeptide binding]; other site 232721000338 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721000339 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...; Region: Sigma70_r4; cl01055 232721000340 Cupin domain; Region: Cupin_2; cl09118 232721000341 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 232721000342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 232721000343 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 232721000344 FAD binding domain; Region: FAD_binding_4; pfam01565 232721000345 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721000346 Integrase core domain; Region: rve; cl01316 232721000347 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 232721000348 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 232721000349 CoenzymeA binding site [chemical binding]; other site 232721000350 subunit interaction site [polypeptide binding]; other site 232721000351 PHB binding site; other site 232721000352 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721000353 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 232721000354 putative ligand binding site [chemical binding]; other site 232721000355 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 232721000356 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 232721000357 Sulfate transporter family; Region: Sulfate_transp; cl00967 232721000358 Permease family; Region: Xan_ur_permease; pfam00860 232721000359 PAS domain S-box; Region: sensory_box; TIGR00229 232721000360 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 232721000361 putative active site [active] 232721000362 heme pocket [chemical binding]; other site 232721000363 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 232721000364 PAS domain S-box; Region: sensory_box; TIGR00229 232721000365 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721000366 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 232721000367 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; cl14056 232721000368 hypothetical protein; Provisional; Region: PRK09126 232721000369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721000370 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 232721000371 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 232721000372 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721000373 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721000374 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721000375 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721000376 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000377 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 232721000378 dimerization interface [polypeptide binding]; other site 232721000379 substrate binding pocket [chemical binding]; other site 232721000380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000381 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 232721000382 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721000383 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721000384 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 232721000385 active site 2 [active] 232721000386 active site 1 [active] 232721000387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000388 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 232721000389 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721000390 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721000391 active site 232721000392 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721000393 enoyl-CoA hydratase; Provisional; Region: PRK09245 232721000394 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 232721000395 substrate binding site [chemical binding]; other site 232721000396 oxyanion hole (OAH) forming residues; other site 232721000397 trimer interface [polypeptide binding]; other site 232721000398 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 232721000399 septum formation inhibitor; Reviewed; Region: PRK01973 232721000400 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 232721000401 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 232721000402 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...; Region: MinD; cd02036 232721000403 Switch I; other site 232721000404 Switch II; other site 232721000405 Septum formation topological specificity factor MinE; Region: MinE; cl00538 232721000406 Flavin Reductases; Region: FlaRed; cl00801 232721000407 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 232721000408 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 232721000409 putative ligand binding site [chemical binding]; other site 232721000410 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 232721000411 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 232721000412 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 232721000413 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000414 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 232721000415 dimerization interface [polypeptide binding]; other site 232721000416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721000417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721000418 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 232721000419 Ligand Binding Site [chemical binding]; other site 232721000420 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 232721000421 active site 232721000422 metal binding site [ion binding]; metal-binding site 232721000423 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 232721000424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000425 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 232721000426 substrate binding pocket [chemical binding]; other site 232721000427 dimerization interface [polypeptide binding]; other site 232721000428 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 232721000429 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 232721000430 active site 232721000431 substrate-binding site [chemical binding]; other site 232721000432 metal-binding site [ion binding] 232721000433 GTP binding site [chemical binding]; other site 232721000434 threonine dehydratase; Provisional; Region: PRK07334 232721000435 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 232721000436 tetramer interface [polypeptide binding]; other site 232721000437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721000438 catalytic residue [active] 232721000439 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 232721000440 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721000441 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721000442 active site 232721000443 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 232721000444 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 232721000445 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 232721000446 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 232721000447 ATP binding site [chemical binding]; other site 232721000448 putative Mg++ binding site [ion binding]; other site 232721000449 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 232721000450 nucleotide binding region [chemical binding]; other site 232721000451 ATP-binding site [chemical binding]; other site 232721000452 RQC domain; Region: RQC; pfam09382 232721000453 HRDC domain; Region: HRDC; cl02578 232721000454 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 232721000455 FeS/SAM binding site; other site 232721000456 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 232721000457 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 232721000458 ATP cone domain; Region: ATP-cone; pfam03477 232721000459 Class III ribonucleotide reductase; Region: RNR_III; cd01675 232721000460 effector binding site; other site 232721000461 active site 232721000462 Zn binding site [ion binding]; other site 232721000463 PAS fold; Region: PAS_4; pfam08448 232721000464 PAS domain S-box; Region: sensory_box; TIGR00229 232721000465 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 232721000466 putative active site [active] 232721000467 heme pocket [chemical binding]; other site 232721000468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721000469 metal binding site [ion binding]; metal-binding site 232721000470 active site 232721000471 I-site; other site 232721000472 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 232721000473 Transposase domain (DUF772); Region: DUF772; cl12084 232721000474 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721000475 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721000476 Integrase core domain; Region: rve; cl01316 232721000477 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...; Region: Heme_Cu_Oxidase_I; cl00275 232721000478 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 232721000479 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...; Region: AAA; cd00009 232721000480 Walker A motif; other site 232721000481 ATP binding site [chemical binding]; other site 232721000482 Walker B motif; other site 232721000483 arginine finger; other site 232721000484 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 232721000485 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 232721000486 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 232721000487 aspartate aminotransferase; Provisional; Region: PRK08361 232721000488 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 232721000489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721000490 homodimer interface [polypeptide binding]; other site 232721000491 catalytic residue [active] 232721000492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000493 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 232721000494 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 232721000495 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721000496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000497 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 232721000498 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 232721000499 CoenzymeA binding site [chemical binding]; other site 232721000500 subunit interaction site [polypeptide binding]; other site 232721000501 PHB binding site; other site 232721000502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000503 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 232721000504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000505 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 232721000506 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721000507 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721000508 active site 232721000509 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 232721000510 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721000511 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 232721000512 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 232721000513 dimer interface [polypeptide binding]; other site 232721000514 active site 232721000515 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 232721000516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721000517 NAD(P) binding site [chemical binding]; other site 232721000518 active site 232721000519 enoyl-CoA hydratase; Provisional; Region: PRK08252 232721000520 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 232721000521 substrate binding site [chemical binding]; other site 232721000522 oxyanion hole (OAH) forming residues; other site 232721000523 trimer interface [polypeptide binding]; other site 232721000524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000525 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 232721000526 short chain dehydrogenase; Provisional; Region: PRK07576 232721000527 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 232721000528 NAD(P) binding site [chemical binding]; other site 232721000529 substrate binding site [chemical binding]; other site 232721000530 homotetramer interface [polypeptide binding]; other site 232721000531 active site 232721000532 homodimer interface [polypeptide binding]; other site 232721000533 enoyl-CoA hydratase; Provisional; Region: PRK06688 232721000534 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 232721000535 substrate binding site [chemical binding]; other site 232721000536 oxyanion hole (OAH) forming residues; other site 232721000537 trimer interface [polypeptide binding]; other site 232721000538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000539 Transcriptional regulator [Transcription]; Region: IclR; COG1414 232721000540 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721000541 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721000542 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; cl09155 232721000543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000544 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 232721000545 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 232721000546 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721000547 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721000548 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 232721000549 active site 232721000550 Uncharacterized conserved protein [Function unknown]; Region: COG3777 232721000551 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 232721000552 active site 2 [active] 232721000553 active site 1 [active] 232721000554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721000555 NAD(P) binding site [chemical binding]; other site 232721000556 short chain dehydrogenase; Provisional; Region: PRK07060 232721000557 active site 232721000558 enoyl-CoA hydratase; Region: PLN02864 232721000559 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 232721000560 dimer interaction site [polypeptide binding]; other site 232721000561 substrate-binding tunnel; other site 232721000562 active site 232721000563 catalytic site [active] 232721000564 substrate binding site [chemical binding]; other site 232721000565 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 232721000566 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 232721000567 substrate binding site [chemical binding]; other site 232721000568 oxyanion hole (OAH) forming residues; other site 232721000569 trimer interface [polypeptide binding]; other site 232721000570 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 232721000571 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 232721000572 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 232721000573 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 232721000574 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 232721000575 dimer interface [polypeptide binding]; other site 232721000576 active site 232721000577 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 232721000578 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 232721000579 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721000580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000581 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 232721000582 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 232721000583 DUF35 OB-fold domain; Region: DUF35; pfam01796 232721000584 thiolase; Provisional; Region: PRK06158 232721000585 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 3-ketacyl-; Region: SCP-x_thiolase; cd00829 232721000586 active site 232721000587 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721000588 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721000589 active site 232721000590 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 232721000591 CoenzymeA binding site [chemical binding]; other site 232721000592 subunit interaction site [polypeptide binding]; other site 232721000593 PHB binding site; other site 232721000594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721000595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000596 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 232721000597 putative dimerization interface [polypeptide binding]; other site 232721000598 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721000599 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...; Region: gram_neg_porins; cd00342 232721000600 trimer interface [polypeptide binding]; other site 232721000601 eyelet of channel; other site 232721000602 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 232721000603 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 232721000604 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 232721000605 NAD(P) binding site [chemical binding]; other site 232721000606 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 232721000607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721000608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000609 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 232721000610 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 232721000611 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 232721000612 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 232721000613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000614 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 232721000615 dimerization interface [polypeptide binding]; other site 232721000616 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 232721000617 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-...; Region: MLE; cd03318 232721000618 octamer interface [polypeptide binding]; other site 232721000619 active site 232721000620 Muconolactone delta-isomerase; Region: MIase; cl01992 232721000621 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 232721000622 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 232721000623 dimer interface [polypeptide binding]; other site 232721000624 active site 232721000625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000626 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 232721000627 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 232721000628 4Fe-4S binding domain; Region: Fer4_5; pfam12801 232721000629 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 alpha-; Region: HCP_like; cl14655 232721000630 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 232721000631 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 232721000632 [2Fe-2S] cluster binding site [ion binding]; other site 232721000633 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 232721000634 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...; Region: AAA; cd00009 232721000635 Walker A motif; other site 232721000636 ATP binding site [chemical binding]; other site 232721000637 Walker B motif; other site 232721000638 arginine finger; other site 232721000639 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 232721000640 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 232721000641 substrate binding pocket [chemical binding]; other site 232721000642 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 232721000643 B12 binding site [chemical binding]; other site 232721000644 cobalt ligand [ion binding]; other site 232721000645 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 232721000646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 232721000647 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 232721000648 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 232721000649 Peptidase M15; Region: Peptidase_M15_3; cl01194 232721000650 shikimate kinase; Reviewed; Region: aroK; PRK00131 232721000651 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...; Region: SK; cd00464 232721000652 ADP binding site [chemical binding]; other site 232721000653 magnesium binding site [ion binding]; other site 232721000654 putative shikimate binding site; other site 232721000655 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 232721000656 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 232721000657 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 232721000658 FAD binding pocket [chemical binding]; other site 232721000659 FAD binding motif [chemical binding]; other site 232721000660 phosphate binding motif [ion binding]; other site 232721000661 beta-alpha-beta structure motif; other site 232721000662 NAD binding pocket [chemical binding]; other site 232721000663 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721000664 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 232721000665 putative ligand binding site [chemical binding]; other site 232721000666 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 232721000667 TM-ABC transporter signature motif; other site 232721000668 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 232721000669 TM-ABC transporter signature motif; other site 232721000670 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 232721000671 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 232721000672 Walker A/P-loop; other site 232721000673 ATP binding site [chemical binding]; other site 232721000674 Q-loop/lid; other site 232721000675 ABC transporter signature motif; other site 232721000676 Walker B; other site 232721000677 D-loop; other site 232721000678 H-loop/switch region; other site 232721000679 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 232721000680 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 232721000681 Walker A/P-loop; other site 232721000682 ATP binding site [chemical binding]; other site 232721000683 Q-loop/lid; other site 232721000684 ABC transporter signature motif; other site 232721000685 Walker B; other site 232721000686 D-loop; other site 232721000687 H-loop/switch region; other site 232721000688 transcriptional regulator; Provisional; Region: PRK10632 232721000689 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000690 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 232721000691 putative effector binding pocket; other site 232721000692 putative dimerization interface [polypeptide binding]; other site 232721000693 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 232721000694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721000695 NAD(P) binding site [chemical binding]; other site 232721000696 active site 232721000697 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 232721000698 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721000699 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721000700 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 232721000701 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721000702 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 232721000703 Nitrogen regulatory protein P-II; Region: P-II; cl00412 232721000704 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 232721000705 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 232721000706 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 232721000707 FAD binding domain; Region: FAD_binding_4; pfam01565 232721000708 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 232721000709 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 232721000710 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 alpha-; Region: HCP_like; cl14655 232721000711 Cysteine-rich domain; Region: CCG; pfam02754 232721000712 Cysteine-rich domain; Region: CCG; pfam02754 232721000713 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl00174 232721000714 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 232721000715 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 232721000716 Predicted transcriptional regulator [Transcription]; Region: COG2378 232721000717 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000718 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...; Region: GSH_Peroxidase; cd00340 232721000719 catalytic residues [active] 232721000720 dimer interface [polypeptide binding]; other site 232721000721 EamA-like transporter family; Region: EamA; cl01037 232721000722 lysophospholipid transporter LplT; Provisional; Region: PRK11195 232721000723 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 232721000724 alanine racemase; Reviewed; Region: dadX; PRK03646 232721000725 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 232721000726 active site 232721000727 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 232721000728 substrate binding site [chemical binding]; other site 232721000729 catalytic residues [active] 232721000730 dimer interface [polypeptide binding]; other site 232721000731 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 232721000732 glutathionine S-transferase; Provisional; Region: PRK10542 232721000733 C-terminal domain interface [polypeptide binding]; other site 232721000734 GSH binding site (G-site) [chemical binding]; other site 232721000735 dimer interface [polypeptide binding]; other site 232721000736 GST_C 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_C_Beta; cd03188 232721000737 dimer interface [polypeptide binding]; other site 232721000738 N-terminal domain interface [polypeptide binding]; other site 232721000739 substrate binding pocket (H-site) [chemical binding]; other site 232721000740 DNA repair protein RadA; Provisional; Region: PRK11823 232721000741 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 232721000742 Walker A motif/ATP binding site; other site 232721000743 ATP binding site [chemical binding]; other site 232721000744 Walker B motif; other site 232721000745 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 232721000746 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 232721000747 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 alpha-...; Region: BCAT_beta_family; cd01557 232721000748 homodimer interface [polypeptide binding]; other site 232721000749 substrate-cofactor binding pocket; other site 232721000750 catalytic residue [active] 232721000751 Zinc-finger domain; Region: zf-CHCC; cl01821 232721000752 O-Antigen ligase; Region: Wzy_C; cl04850 232721000753 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 232721000754 putative ADP-binding pocket [chemical binding]; other site 232721000755 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 232721000756 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 232721000757 active site 232721000758 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 232721000759 Nitronate monooxygenase; Region: NMO; pfam03060 232721000760 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...; Region: NPD_like; cd04730 232721000761 FMN binding site [chemical binding]; other site 232721000762 substrate binding site [chemical binding]; other site 232721000763 putative catalytic residue [active] 232721000764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000765 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 232721000766 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 232721000767 dimerization interface [polypeptide binding]; other site 232721000768 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 232721000769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 232721000770 MOSC domain; Region: MOSC; pfam03473 232721000771 3-alpha domain; Region: 3-alpha; pfam03475 232721000772 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 232721000773 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 trans-...; Region: HisKA; cd00082 232721000774 dimer interface [polypeptide binding]; other site 232721000775 phosphorylation site [posttranslational modification] 232721000776 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 232721000777 ATP binding site [chemical binding]; other site 232721000778 Mg2+ binding site [ion binding]; other site 232721000779 G-X-G motif; other site 232721000780 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 232721000781 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 232721000782 active site 232721000783 phosphorylation site [posttranslational modification] 232721000784 intermolecular recognition site; other site 232721000785 dimerization interface [polypeptide binding]; other site 232721000786 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...; Region: trans_reg_C; cd00383 232721000787 DNA binding site [nucleotide binding] 232721000788 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 232721000789 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 232721000790 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; cl12011 232721000791 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; cl11420 232721000792 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 232721000793 Peptidase family M48; Region: Peptidase_M48; cl12018 232721000794 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 232721000795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721000796 DNA-binding site [nucleotide binding]; DNA binding site 232721000797 FCD domain; Region: FCD; cl11656 232721000798 Activator of aromatic catabolism; Region: XylR_N; pfam06505 232721000799 V4R domain; Region: V4R; cl08369 232721000800 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 232721000801 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...; Region: AAA; cd00009 232721000802 Walker A motif; other site 232721000803 ATP binding site [chemical binding]; other site 232721000804 Walker B motif; other site 232721000805 arginine finger; other site 232721000806 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 232721000807 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 232721000808 dimerization interface [polypeptide binding]; other site 232721000809 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 232721000810 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 232721000811 dimerization interface [polypeptide binding]; other site 232721000812 putative path to active site cavity [active] 232721000813 diiron center [ion binding]; other site 232721000814 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 232721000815 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 232721000816 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 232721000817 catalytic loop [active] 232721000818 iron binding site [ion binding]; other site 232721000819 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P); Region: phenol_2-monooxygenase_like; cd06211 232721000820 FAD binding pocket [chemical binding]; other site 232721000821 FAD binding motif [chemical binding]; other site 232721000822 phosphate binding motif [ion binding]; other site 232721000823 beta-alpha-beta structure motif; other site 232721000824 NAD binding pocket [chemical binding]; other site 232721000825 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 232721000826 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000827 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_Chlorocatechol; cd08446 232721000828 dimerization interface [polypeptide binding]; other site 232721000829 putative substrate binding pocket [chemical binding]; other site 232721000830 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 232721000831 catalytic loop [active] 232721000832 iron binding site [ion binding]; other site 232721000833 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 232721000834 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 232721000835 tetramer interface [polypeptide binding]; other site 232721000836 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 232721000837 tetramer interface [polypeptide binding]; other site 232721000838 active site 232721000839 Fe binding site [ion binding]; other site 232721000840 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 232721000841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000842 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_Chlorocatechol; cd08446 232721000843 dimerization interface [polypeptide binding]; other site 232721000844 putative substrate binding pocket [chemical binding]; other site 232721000845 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 232721000846 catalytic loop [active] 232721000847 iron binding site [ion binding]; other site 232721000848 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 232721000849 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 232721000850 tetramer interface [polypeptide binding]; other site 232721000851 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 232721000852 active site 232721000853 metal binding site [ion binding]; metal-binding site 232721000854 Domain of unknown function (DUF336); Region: DUF336; cl01249 232721000855 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721000856 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 232721000857 NAD binding site [chemical binding]; other site 232721000858 catalytic residues [active] 232721000859 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 232721000860 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721000861 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 232721000862 acetaldehyde dehydrogenase; Validated; Region: PRK08300 232721000863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721000864 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 232721000865 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 232721000866 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 232721000867 active site 232721000868 catalytic residues [active] 232721000869 metal binding site [ion binding]; metal-binding site 232721000870 DmpG-like communication domain; Region: DmpG_comm; pfam07836 232721000871 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 232721000872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721000873 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 232721000874 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 232721000875 active site 1 [active] 232721000876 dimer interface [polypeptide binding]; other site 232721000877 hexamer interface [polypeptide binding]; other site 232721000878 active site 2 [active] 232721000879 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721000880 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721000881 DNA-binding site [nucleotide binding]; DNA binding site 232721000882 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721000883 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721000884 active site 232721000885 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 232721000886 classical (c) SDRs; Region: SDR_c; cd05233 232721000887 NAD(P) binding site [chemical binding]; other site 232721000888 active site 232721000889 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 232721000890 putative active site [active] 232721000891 putative substrate binding site [chemical binding]; other site 232721000892 ATP binding site [chemical binding]; other site 232721000893 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 232721000894 putative active site [active] 232721000895 putative DNA binding site [nucleotide binding]; other site 232721000896 putative phosphate binding site [ion binding]; other site 232721000897 putative catalytic site [active] 232721000898 metal binding site A [ion binding]; metal-binding site 232721000899 putative AP binding site [nucleotide binding]; other site 232721000900 putative metal binding site B [ion binding]; other site 232721000901 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721000902 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 232721000903 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 232721000904 GatB domain; Region: GatB_Yqey; cl11497 232721000905 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 232721000906 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 232721000907 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 232721000908 rod shape-determining protein MreB; Provisional; Region: PRK13927 232721000909 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 232721000910 ATP binding site [chemical binding]; other site 232721000911 Cell division protein FtsA; Region: FtsA; cl11496 232721000912 rod shape-determining protein MreC; Provisional; Region: PRK13922 232721000913 rod shape-determining protein MreC; Region: MreC; pfam04085 232721000914 rod shape-determining protein MreD; Region: MreD; cl01087 232721000915 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 232721000916 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 232721000917 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 232721000918 EamA-like transporter family; Region: EamA; cl01037 232721000919 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 232721000920 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 232721000921 Walker A/P-loop; other site 232721000922 ATP binding site [chemical binding]; other site 232721000923 Q-loop/lid; other site 232721000924 ABC transporter signature motif; other site 232721000925 Walker B; other site 232721000926 D-loop; other site 232721000927 H-loop/switch region; other site 232721000928 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721000929 dimer interface [polypeptide binding]; other site 232721000930 conserved gate region; other site 232721000931 putative PBP binding loops; other site 232721000932 ABC-ATPase subunit interface; other site 232721000933 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 232721000934 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...; Region: PBPb; cd00134 232721000935 substrate binding pocket [chemical binding]; other site 232721000936 membrane-bound complex binding site; other site 232721000937 hinge residues; other site 232721000938 Arginase family; Region: Arginase; cl00306 232721000939 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 232721000940 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 232721000941 choline dehydrogenase; Validated; Region: PRK02106 232721000942 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 232721000943 Domain of unknown function DUF140; Region: DUF140; cl00510 232721000944 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 232721000945 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 232721000946 Walker A/P-loop; other site 232721000947 ATP binding site [chemical binding]; other site 232721000948 Q-loop/lid; other site 232721000949 ABC transporter signature motif; other site 232721000950 Walker B; other site 232721000951 D-loop; other site 232721000952 H-loop/switch region; other site 232721000953 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 232721000954 mce related protein; Region: MCE; cl03606 232721000955 CsbD-like; Region: CsbD; cl01272 232721000956 cation-binding hemerythrin HHE family protein; Provisional; Region: PRK01917 232721000957 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 232721000958 octamerization interface [polypeptide binding]; other site 232721000959 diferric-oxygen binding site [ion binding]; other site 232721000960 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 232721000961 PAS fold; Region: PAS_3; pfam08447 232721000962 putative active site [active] 232721000963 heme pocket [chemical binding]; other site 232721000964 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721000965 metal binding site [ion binding]; metal-binding site 232721000966 active site 232721000967 I-site; other site 232721000968 MarC family integral membrane protein; Region: MarC; cl00919 232721000969 short chain dehydrogenase; Provisional; Region: PRK06123 232721000970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721000971 NAD(P) binding site [chemical binding]; other site 232721000972 active site 232721000973 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 232721000974 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721000975 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 232721000976 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 232721000977 putative substrate translocation pore; other site 232721000978 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 232721000979 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 232721000980 NodT family; Region: outer_NodT; TIGR01845 232721000981 Outer membrane efflux protein; Region: OEP; pfam02321 232721000982 Outer membrane efflux protein; Region: OEP; pfam02321 232721000983 Transcriptional regulators [Transcription]; Region: MarR; COG1846 232721000984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721000985 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 232721000986 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 232721000987 dimer interface [polypeptide binding]; other site 232721000988 allosteric magnesium binding site [ion binding]; other site 232721000989 active site 232721000990 aspartate-rich active site metal binding site; other site 232721000991 Schiff base residues; other site 232721000992 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 232721000993 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 232721000994 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 232721000995 dimer interface [polypeptide binding]; other site 232721000996 [2Fe-2S] cluster binding site [ion binding]; other site 232721000997 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 232721000998 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721000999 Beta-lactamase; Region: Beta-lactamase; cl01009 232721001000 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 232721001001 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 232721001002 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 232721001003 S17 interaction site [polypeptide binding]; other site 232721001004 S8 interaction site; other site 232721001005 16S rRNA interaction site [nucleotide binding]; other site 232721001006 streptomycin interaction site [chemical binding]; other site 232721001007 23S rRNA interaction site [nucleotide binding]; other site 232721001008 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 232721001009 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 232721001010 elongation factor G; Reviewed; Region: PRK00007 232721001011 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 232721001012 G1 box; other site 232721001013 putative GEF interaction site [polypeptide binding]; other site 232721001014 GTP/Mg2+ binding site [chemical binding]; other site 232721001015 Switch I region; other site 232721001016 G2 box; other site 232721001017 G3 box; other site 232721001018 Switch II region; other site 232721001019 G4 box; other site 232721001020 G5 box; other site 232721001021 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...; Region: EFG_mtEFG_II; cd04088 232721001022 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...; Region: EFG_mtEFG1_IV; cd01434 232721001023 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...; Region: EFG_mtEFG_C; cd03713 232721001024 elongation factor Tu; Reviewed; Region: PRK00049 232721001025 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 232721001026 G1 box; other site 232721001027 GEF interaction site [polypeptide binding]; other site 232721001028 GTP/Mg2+ binding site [chemical binding]; other site 232721001029 Switch I region; other site 232721001030 G2 box; other site 232721001031 G3 box; other site 232721001032 Switch II region; other site 232721001033 G4 box; other site 232721001034 G5 box; other site 232721001035 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 232721001036 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 232721001037 Antibiotic Binding Site [chemical binding]; other site 232721001038 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 232721001039 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 232721001040 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 232721001041 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 232721001042 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 232721001043 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 232721001044 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 232721001045 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 232721001046 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 232721001047 putative translocon binding site; other site 232721001048 protein-rRNA interface [nucleotide binding]; other site 232721001049 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 232721001050 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...; Region: 30S_S3_KH; cd02412 232721001051 G-X-X-G motif; other site 232721001052 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 232721001053 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 232721001054 23S rRNA interface [nucleotide binding]; other site 232721001055 5S rRNA interface [nucleotide binding]; other site 232721001056 putative antibiotic binding site [chemical binding]; other site 232721001057 L25 interface [polypeptide binding]; other site 232721001058 L27 interface [polypeptide binding]; other site 232721001059 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...; Region: Ribosomal_L29_HIP; cd00427 232721001060 23S rRNA interface [nucleotide binding]; other site 232721001061 putative translocon interaction site; other site 232721001062 signal recognition particle (SRP54) interaction site; other site 232721001063 L23 interface [polypeptide binding]; other site 232721001064 trigger factor interaction site; other site 232721001065 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 232721001066 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 232721001067 catalytic triad [active] 232721001068 dimer interface [polypeptide binding]; other site 232721001069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 232721001070 Coenzyme A binding pocket [chemical binding]; other site 232721001071 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 232721001072 Cytochrome C'; Region: Cytochrom_C_2; cl01610 232721001073 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...; Region: TlpA_like_family; cd02966 232721001074 catalytic residues [active] 232721001075 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 232721001076 putative substrate translocation pore; other site 232721001077 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...; Region: PTS_IIA_man; cl00025 232721001078 active pocket/dimerization site; other site 232721001079 active site 232721001080 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 232721001081 dimerization domain swap beta strand [polypeptide binding]; other site 232721001082 regulatory protein interface [polypeptide binding]; other site 232721001083 active site 232721001084 regulatory phosphorylation site [posttranslational modification]; other site 232721001085 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 232721001086 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 232721001087 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 232721001088 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; cl09155 232721001089 lipoyl synthase; Provisional; Region: PRK05481 232721001090 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 232721001091 FeS/SAM binding site; other site 232721001092 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 232721001093 Protein of unknown function (DUF493); Region: DUF493; cl01102 232721001094 ATP synthase I chain; Region: ATP_synt_I; cl09170 232721001095 ATP synthase A chain; Region: ATP-synt_A; cl00413 232721001096 ATP synthase subunit C; Region: ATP-synt_C; cl00466 232721001097 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 232721001098 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 232721001099 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 232721001100 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 232721001101 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 232721001102 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 232721001103 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 232721001104 beta subunit interaction interface [polypeptide binding]; other site 232721001105 Walker A motif; other site 232721001106 ATP binding site [chemical binding]; other site 232721001107 Walker B motif; other site 232721001108 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 232721001109 ATP synthase; Region: ATP-synt; cl00365 232721001110 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 232721001111 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 232721001112 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 232721001113 alpha subunit interaction interface [polypeptide binding]; other site 232721001114 Walker A motif; other site 232721001115 ATP binding site [chemical binding]; other site 232721001116 Walker B motif; other site 232721001117 inhibitor binding site; inhibition site 232721001118 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 232721001119 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 232721001120 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 232721001121 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 232721001122 ATP-dependent DNA ligase; Validated; Region: PRK09247 232721001123 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 232721001124 active site 232721001125 DNA binding site [nucleotide binding] 232721001126 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 232721001127 DNA binding site [nucleotide binding] 232721001128 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 232721001129 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; cl14882 232721001130 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 232721001131 nucleotide binding region [chemical binding]; other site 232721001132 ATP-binding site [chemical binding]; other site 232721001133 DEAD/H associated; Region: DEAD_assoc; pfam08494 232721001134 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 232721001135 putative active site [active] 232721001136 putative metal binding site [ion binding]; other site 232721001137 Domain of unknown function (DUF477); Region: DUF477; cl01535 232721001138 Domain of unknown function (DUF477); Region: DUF477; cl01535 232721001139 LemA family; Region: LemA; cl00742 232721001140 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 232721001141 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 232721001142 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 232721001143 NodT family; Region: outer_NodT; TIGR01845 232721001144 Outer membrane efflux protein; Region: OEP; pfam02321 232721001145 Outer membrane efflux protein; Region: OEP; pfam02321 232721001146 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 232721001147 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721001148 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721001149 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 232721001150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001151 Transcriptional regulator [Transcription]; Region: IclR; COG1414 232721001152 Bacterial transcriptional regulator; Region: IclR; pfam01614 232721001153 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721001154 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721001155 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 232721001156 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 232721001157 Protein export membrane protein; Region: SecD_SecF; cl14618 232721001158 NodT family; Region: outer_NodT; TIGR01845 232721001159 Outer membrane efflux protein; Region: OEP; pfam02321 232721001160 Outer membrane efflux protein; Region: OEP; pfam02321 232721001161 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; cl11391 232721001162 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 232721001163 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 232721001164 Predicted outer membrane protein [Function unknown]; Region: COG3652 232721001165 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 232721001166 putative active site [active] 232721001167 putative dimer interface [polypeptide binding]; other site 232721001168 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 232721001169 active site 1 [active] 232721001170 dimer interface [polypeptide binding]; other site 232721001171 hexamer interface [polypeptide binding]; other site 232721001172 active site 2 [active] 232721001173 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; cl09155 232721001174 active site 232721001175 LysR family transcriptional regulator; Provisional; Region: PRK14997 232721001176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001177 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 232721001178 putative effector binding pocket; other site 232721001179 dimerization interface [polypeptide binding]; other site 232721001180 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 232721001181 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 232721001182 psiF repeat; Region: PsiF_repeat; pfam07769 232721001183 psiF repeat; Region: PsiF_repeat; pfam07769 232721001184 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 232721001185 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 232721001186 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721001187 active site 232721001188 HIGH motif; other site 232721001189 nucleotide binding site [chemical binding]; other site 232721001190 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 232721001191 KMSK motif region; other site 232721001192 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 232721001193 tRNA binding surface [nucleotide binding]; other site 232721001194 anticodon binding site; other site 232721001195 Sporulation related domain; Region: SPOR; cl10051 232721001196 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 232721001197 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 232721001198 catalytic residues [active] 232721001199 hinge region; other site 232721001200 alpha helical domain; other site 232721001201 OstA-like protein; Region: OstA; cl00844 232721001202 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 232721001203 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 232721001204 Walker A/P-loop; other site 232721001205 ATP binding site [chemical binding]; other site 232721001206 Q-loop/lid; other site 232721001207 ABC transporter signature motif; other site 232721001208 Walker B; other site 232721001209 D-loop; other site 232721001210 H-loop/switch region; other site 232721001211 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 232721001212 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 232721001213 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 232721001214 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 232721001215 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...; Region: 4HBT; cd00586 232721001216 active site 232721001217 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 232721001218 THUMP domain; Region: THUMP; cl12076 232721001219 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; cl12011 232721001220 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 232721001221 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 232721001222 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 232721001223 putative active site [active] 232721001224 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 232721001225 Competence-damaged protein; Region: CinA; cl00666 232721001226 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 232721001227 tetramer interfaces [polypeptide binding]; other site 232721001228 binuclear metal-binding site [ion binding]; other site 232721001229 thiamine monophosphate kinase; Provisional; Region: PRK05731 232721001230 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 232721001231 ATP binding site [chemical binding]; other site 232721001232 dimerization interface [polypeptide binding]; other site 232721001233 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 232721001234 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 232721001235 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 232721001236 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 232721001237 Site-specific recombinase; Region: SpecificRecomb; pfam10136 232721001238 Protein of unknown function (DUF525); Region: DUF525; cl01119 232721001239 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...; Region: RPE; cd00429 232721001240 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 232721001241 substrate binding site [chemical binding]; other site 232721001242 hexamer interface [polypeptide binding]; other site 232721001243 metal binding site [ion binding]; metal-binding site 232721001244 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 232721001245 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 232721001246 motif II; other site 232721001247 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 232721001248 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721001249 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721001250 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721001251 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 232721001252 anthranilate synthase component I; Provisional; Region: PRK13565 232721001253 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 232721001254 chorismate binding enzyme; Region: Chorismate_bind; cl10555 232721001255 Chorismate mutase type II; Region: CM_2; cl00693 232721001256 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 232721001257 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 232721001258 glutamine binding [chemical binding]; other site 232721001259 catalytic triad [active] 232721001260 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 232721001261 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 232721001262 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 232721001263 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 232721001264 active site 232721001265 ribulose/triose binding site [chemical binding]; other site 232721001266 phosphate binding site [ion binding]; other site 232721001267 substrate (anthranilate) binding pocket [chemical binding]; other site 232721001268 product (indole) binding pocket [chemical binding]; other site 232721001269 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 232721001270 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 232721001271 PAS fold; Region: PAS_3; pfam08447 232721001272 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 232721001273 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 232721001274 PAS fold; Region: PAS_3; pfam08447 232721001275 putative active site [active] 232721001276 heme pocket [chemical binding]; other site 232721001277 PAS domain S-box; Region: sensory_box; TIGR00229 232721001278 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 232721001279 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721001280 metal binding site [ion binding]; metal-binding site 232721001281 active site 232721001282 I-site; other site 232721001283 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 232721001284 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 232721001285 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 232721001286 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 232721001287 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 232721001288 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 four-...; Region: RecG_wedge_OBF; cd04488 232721001289 generic binding surface II; other site 232721001290 ssDNA binding site; other site 232721001291 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 232721001292 ATP binding site [chemical binding]; other site 232721001293 putative Mg++ binding site [ion binding]; other site 232721001294 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 232721001295 nucleotide binding region [chemical binding]; other site 232721001296 ATP-binding site [chemical binding]; other site 232721001297 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 232721001298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001299 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 232721001300 dimerization interface [polypeptide binding]; other site 232721001301 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 232721001302 dimerization interface [polypeptide binding]; other site 232721001303 DPS ferroxidase diiron center [ion binding]; other site 232721001304 ion pore; other site 232721001305 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 232721001306 putative active site; other site 232721001307 putative triphosphate binding site [ion binding]; other site 232721001308 CHAD domain; Region: CHAD; cl10506 232721001309 UbiA prenyltransferase family; Region: UbiA; cl00337 232721001310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721001311 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 232721001312 glycerol kinase; Provisional; Region: glpK; PRK00047 232721001313 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 232721001314 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 232721001315 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 232721001316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001317 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 232721001318 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 232721001319 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 232721001320 Walker A/P-loop; other site 232721001321 ATP binding site [chemical binding]; other site 232721001322 Q-loop/lid; other site 232721001323 ABC transporter signature motif; other site 232721001324 Walker B; other site 232721001325 D-loop; other site 232721001326 H-loop/switch region; other site 232721001327 TOBE domain; Region: TOBE_2; cl01440 232721001328 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 232721001329 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 232721001330 Walker A/P-loop; other site 232721001331 ATP binding site [chemical binding]; other site 232721001332 Q-loop/lid; other site 232721001333 ABC transporter signature motif; other site 232721001334 Walker B; other site 232721001335 D-loop; other site 232721001336 H-loop/switch region; other site 232721001337 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 232721001338 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721001339 putative PBP binding loops; other site 232721001340 dimer interface [polypeptide binding]; other site 232721001341 ABC-ATPase subunit interface; other site 232721001342 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 232721001343 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721001344 dimer interface [polypeptide binding]; other site 232721001345 conserved gate region; other site 232721001346 putative PBP binding loops; other site 232721001347 ABC-ATPase subunit interface; other site 232721001348 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 232721001349 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 232721001350 glycerol-3-phosphate dehydrogenase; Region: PLN02464 232721001351 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 232721001352 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 232721001353 KOW motif; Region: KOW; cl00354 232721001354 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 232721001355 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 232721001356 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 232721001357 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 232721001358 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 232721001359 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 232721001360 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 232721001361 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 232721001362 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 232721001363 5S rRNA interface [nucleotide binding]; other site 232721001364 23S rRNA interface [nucleotide binding]; other site 232721001365 L5 interface [polypeptide binding]; other site 232721001366 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 232721001367 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 232721001368 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 232721001369 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...; Region: Ribosomal_L30; cd01658 232721001370 23S rRNA binding site [nucleotide binding]; other site 232721001371 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 232721001372 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 232721001373 SecY translocase; Region: SecY; pfam00344 232721001374 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 232721001375 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 232721001376 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 232721001377 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 232721001378 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 232721001379 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 232721001380 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 232721001381 RNA binding surface [nucleotide binding]; other site 232721001382 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 232721001383 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 232721001384 alphaNTD homodimer interface [polypeptide binding]; other site 232721001385 alphaNTD - beta interaction site [polypeptide binding]; other site 232721001386 alphaNTD - beta' interaction site [polypeptide binding]; other site 232721001387 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 232721001388 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 232721001389 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 232721001390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721001391 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 232721001392 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 232721001393 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 232721001394 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 232721001395 putative NAD(P) binding site [chemical binding]; other site 232721001396 active site 232721001397 putative substrate binding site [chemical binding]; other site 232721001398 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 232721001399 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 232721001400 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 232721001401 Ligand binding site [chemical binding]; other site 232721001402 Putative Catalytic site [active] 232721001403 DXD motif; other site 232721001404 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 232721001405 Predicted methyltransferases [General function prediction only]; Region: COG0313 232721001406 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 232721001407 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 232721001408 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 232721001409 dimer interface [polypeptide binding]; other site 232721001410 active site 232721001411 BON domain; Region: BON; cl02771 232721001412 BON domain; Region: BON; cl02771 232721001413 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 232721001414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721001415 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 232721001416 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 232721001417 Walker A motif; other site 232721001418 ATP binding site [chemical binding]; other site 232721001419 Walker B motif; other site 232721001420 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 232721001421 ligand binding site [chemical binding]; other site 232721001422 flexible hinge region; other site 232721001423 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 232721001424 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 232721001425 Walker A motif; other site 232721001426 ATP binding site [chemical binding]; other site 232721001427 Walker B motif; other site 232721001428 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 232721001429 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 232721001430 catalytic residue [active] 232721001431 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 232721001432 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721001433 catalytic residue [active] 232721001434 Protein of unknown function (DUF445); Region: DUF445; pfam04286 232721001435 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 232721001436 FAD binding domain; Region: FAD_binding_4; pfam01565 232721001437 MT-A70; Region: MT-A70; cl01947 232721001438 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 232721001439 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 232721001440 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 232721001441 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 232721001442 putative active site [active] 232721001443 putative substrate binding site [chemical binding]; other site 232721001444 putative cosubstrate binding site; other site 232721001445 catalytic site [active] 232721001446 Protein of unknown function, DUF399; Region: DUF399; cl01139 232721001447 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 232721001448 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 232721001449 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 232721001450 active site 232721001451 dimer interface [polypeptide binding]; other site 232721001452 effector binding site; other site 232721001453 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 232721001454 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 connected by an extended linker. The...; Region: HAMP; cd06225 232721001455 dimerization interface [polypeptide binding]; other site 232721001456 Histidine kinase; Region: HisKA_3; pfam07730 232721001457 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 232721001458 ATP binding site [chemical binding]; other site 232721001459 Mg2+ binding site [ion binding]; other site 232721001460 G-X-G motif; other site 232721001461 transcriptional regulator NarL; Provisional; Region: PRK10651 232721001462 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 232721001463 active site 232721001464 phosphorylation site [posttranslational modification] 232721001465 intermolecular recognition site; other site 232721001466 dimerization interface [polypeptide binding]; other site 232721001467 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...; Region: LuxR_C_like; cd06170 232721001468 DNA binding residues [nucleotide binding] 232721001469 dimerization interface [polypeptide binding]; other site 232721001470 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 232721001471 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 232721001472 putative substrate translocation pore; other site 232721001473 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 232721001474 CCC1-related family of proteins; Region: CCC1_like; cl00278 232721001475 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 232721001476 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...; Region: MopB_Nitrate-R-NarG-like; cd02750 232721001477 [4Fe-4S] binding site [ion binding]; other site 232721001478 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 232721001479 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 232721001480 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 232721001481 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...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 232721001482 molybdopterin cofactor binding site; other site 232721001483 nitrate reductase, beta subunit; Region: narH; TIGR01660 232721001484 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 232721001485 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 232721001486 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 232721001487 PPIC-type PPIASE domain; Region: Rotamase; cl08278 232721001488 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 232721001489 active site clefts [active] 232721001490 zinc binding site [ion binding]; other site 232721001491 dimer interface [polypeptide binding]; other site 232721001492 NnrS protein; Region: NnrS; cl01258 232721001493 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 beta-...; Region: Arsenite_oxidase; cd02135 232721001494 putative FMN binding site [chemical binding]; other site 232721001495 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 232721001496 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 232721001497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001498 Transcriptional regulator [Transcription]; Region: IclR; COG1414 232721001499 Bacterial transcriptional regulator; Region: IclR; pfam01614 232721001500 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 232721001501 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 232721001502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721001503 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 232721001504 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 232721001505 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...; Region: MopB_3; cd02766 232721001506 putative [4Fe-4S] binding site [ion binding]; other site 232721001507 putative molybdopterin cofactor binding site [chemical binding]; other site 232721001508 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 232721001509 putative molybdopterin cofactor binding site; other site 232721001510 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721001511 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 232721001512 putative ligand binding site [chemical binding]; other site 232721001513 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 232721001514 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 232721001515 metal binding site [ion binding]; metal-binding site 232721001516 putative dimer interface [polypeptide binding]; other site 232721001517 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_6; cd06233 232721001518 putative active site [active] 232721001519 Zn-binding site [ion binding]; other site 232721001520 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 232721001521 acyl-CoA binding pocket [chemical binding]; other site 232721001522 CoA binding site [chemical binding]; other site 232721001523 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl01778 232721001524 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 232721001525 exopolyphosphatase; Region: exo_poly_only; TIGR03706 232721001526 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 232721001527 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; cl12011 232721001528 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 232721001529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721001530 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 232721001531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721001532 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 232721001533 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721001534 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 232721001535 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 232721001536 Walker A/P-loop; other site 232721001537 ATP binding site [chemical binding]; other site 232721001538 Q-loop/lid; other site 232721001539 ABC transporter signature motif; other site 232721001540 Walker B; other site 232721001541 D-loop; other site 232721001542 H-loop/switch region; other site 232721001543 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 232721001544 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721001545 putative ligand binding site [chemical binding]; other site 232721001546 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 232721001547 TM-ABC transporter signature motif; other site 232721001548 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 232721001549 TM-ABC transporter signature motif; other site 232721001550 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 232721001551 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 232721001552 Walker A/P-loop; other site 232721001553 ATP binding site [chemical binding]; other site 232721001554 Q-loop/lid; other site 232721001555 ABC transporter signature motif; other site 232721001556 Walker B; other site 232721001557 D-loop; other site 232721001558 H-loop/switch region; other site 232721001559 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 232721001560 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721001561 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721001562 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721001563 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 232721001564 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 232721001565 ligand binding site [chemical binding]; other site 232721001566 flexible hinge region; other site 232721001567 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001568 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 232721001569 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 232721001570 RNA binding surface [nucleotide binding]; other site 232721001571 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 232721001572 active site 232721001573 heat shock protein 90; Provisional; Region: PRK05218 232721001574 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 232721001575 ATP binding site [chemical binding]; other site 232721001576 Mg2+ binding site [ion binding]; other site 232721001577 G-X-G motif; other site 232721001578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721001579 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 232721001580 Predicted membrane protein [Function unknown]; Region: COG4083 232721001581 Phosphotransferase enzyme family; Region: APH; pfam01636 232721001582 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 232721001583 active site 232721001584 ATP binding site [chemical binding]; other site 232721001585 Protein kinase domain; Region: Pkinase; pfam00069 232721001586 Catalytic domain of Protein Kinases; Region: PKc; cd00180 232721001587 active site 232721001588 ATP binding site [chemical binding]; other site 232721001589 substrate binding site [chemical binding]; other site 232721001590 activation loop (A-loop); other site 232721001591 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 232721001592 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 232721001593 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 232721001594 active site 232721001595 metal binding site [ion binding]; metal-binding site 232721001596 OsmC-like protein; Region: OsmC; cl00767 232721001597 Transcriptional regulators [Transcription]; Region: MarR; COG1846 232721001598 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001599 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 232721001600 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 232721001601 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 232721001602 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 232721001603 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721001604 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 232721001605 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 232721001606 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 232721001607 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 232721001608 dimer interface [polypeptide binding]; other site 232721001609 active site 232721001610 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 232721001611 substrate binding site [chemical binding]; other site 232721001612 catalytic residue [active] 232721001613 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 232721001614 catalytic core [active] 232721001615 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 232721001616 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 232721001617 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...; Region: Alpha_ANH_like_II; cd01993 232721001618 Ligand Binding Site [chemical binding]; other site 232721001619 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 232721001620 active site 232721001621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721001622 short chain dehydrogenase; Provisional; Region: PRK12939 232721001623 NAD(P) binding site [chemical binding]; other site 232721001624 active site 232721001625 Uncharacterized conserved protein [Function unknown]; Region: COG1565 232721001626 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 232721001627 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 232721001628 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 232721001629 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...; Region: GT1_TPS; cd03788 232721001630 active site 232721001631 homotetramer interface [polypeptide binding]; other site 232721001632 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 232721001633 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 232721001634 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; cl11391 232721001635 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 232721001636 thioredoxin 2; Provisional; Region: PRK10996 232721001637 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 232721001638 catalytic residues [active] 232721001639 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 232721001640 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 232721001641 active site 232721001642 NTP binding site [chemical binding]; other site 232721001643 metal binding triad [ion binding]; metal-binding site 232721001644 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 232721001645 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721001646 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 232721001647 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 232721001648 putative active site [active] 232721001649 putative metal binding site [ion binding]; other site 232721001650 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)...; Region: GST_N_1; cd03043 232721001651 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 232721001652 putative C-terminal domain interface [polypeptide binding]; other site 232721001653 putative GSH binding site (G-site) [chemical binding]; other site 232721001654 putative dimer interface [polypeptide binding]; other site 232721001655 GST_C family, unknown subfamily 3; composed of uncharacterized 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 endogenous...; Region: GST_C_3; cd03194 232721001656 putative substrate binding pocket (H-site) [chemical binding]; other site 232721001657 putative N-terminal domain interface [polypeptide binding]; other site 232721001658 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 232721001659 lytic murein transglycosylase; Provisional; Region: PRK11619 232721001660 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 catalyze...; Region: LT_GEWL; cd00254 232721001661 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721001662 catalytic residue [active] 232721001663 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 232721001664 Uncharacterized conserved protein [Function unknown]; Region: COG5591 232721001665 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 232721001666 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 232721001667 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 232721001668 active site 232721001669 substrate binding site [chemical binding]; other site 232721001670 FMN binding site [chemical binding]; other site 232721001671 putative catalytic residues [active] 232721001672 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 232721001673 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 232721001674 N-terminal plug; other site 232721001675 ligand-binding site [chemical binding]; other site 232721001676 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721001677 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 232721001678 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721001679 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 232721001680 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721001681 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH)...; Region: pro_PheOH; cd03348 232721001682 cofactor binding site; other site 232721001683 metal binding site [ion binding]; metal-binding site 232721001684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721001685 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 232721001686 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 232721001687 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 232721001688 dimer interface [polypeptide binding]; other site 232721001689 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 232721001690 active site 232721001691 Fe binding site [ion binding]; other site 232721001692 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721001693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 232721001696 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 232721001697 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 232721001698 Transporter associated domain; Region: CorC_HlyC; pfam03471 232721001699 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 232721001700 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 232721001701 putative active site [active] 232721001702 catalytic triad [active] 232721001703 putative dimer interface [polypeptide binding]; other site 232721001704 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 232721001705 dimer interface [polypeptide binding]; other site 232721001706 active site 1 [active] 232721001707 active site 2 [active] 232721001708 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 232721001709 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 232721001710 dimer interface [polypeptide binding]; other site 232721001711 active site 232721001712 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 232721001713 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 232721001714 dimer interface [polypeptide binding]; other site 232721001715 motif 1; other site 232721001716 active site 232721001717 motif 2; other site 232721001718 motif 3; other site 232721001719 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 232721001720 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 232721001721 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 232721001722 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 232721001723 active site 232721001724 motif I; other site 232721001725 motif II; other site 232721001726 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 232721001727 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 232721001728 putative acyl-acceptor binding pocket; other site 232721001729 Protein of unknown function DUF45; Region: DUF45; cl00636 232721001730 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 232721001731 active site residue [active] 232721001732 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 232721001733 BON domain; Region: BON; cl02771 232721001734 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 232721001735 putative peptidoglycan binding site; other site 232721001736 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 232721001737 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721001738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721001739 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 232721001740 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 232721001741 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 232721001742 NAD binding site [chemical binding]; other site 232721001743 substrate binding site [chemical binding]; other site 232721001744 homodimer interface [polypeptide binding]; other site 232721001745 active site 232721001746 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 232721001747 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 232721001748 NADP binding site [chemical binding]; other site 232721001749 active site 232721001750 putative substrate binding site [chemical binding]; other site 232721001751 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 232721001752 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 232721001753 substrate binding site [chemical binding]; other site 232721001754 tetramer interface [polypeptide binding]; other site 232721001755 Cupin domain; Region: Cupin_2; cl09118 232721001756 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 232721001757 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 232721001758 Ligand binding site [chemical binding]; other site 232721001759 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 232721001760 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 232721001761 active site 232721001762 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 232721001763 Probable Catalytic site [active] 232721001764 metal binding site [ion binding]; metal-binding site 232721001765 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 232721001766 Probable Catalytic site [active] 232721001767 metal binding site [ion binding]; metal-binding site 232721001768 ABC-2 type transporter; Region: ABC2_membrane; cl11417 232721001769 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 232721001770 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 232721001771 Walker A/P-loop; other site 232721001772 ATP binding site [chemical binding]; other site 232721001773 Q-loop/lid; other site 232721001774 ABC transporter signature motif; other site 232721001775 Walker B; other site 232721001776 D-loop; other site 232721001777 H-loop/switch region; other site 232721001778 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 232721001779 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 232721001780 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 232721001781 putative trimer interface [polypeptide binding]; other site 232721001782 putative CoA binding site [chemical binding]; other site 232721001783 Predicted membrane protein (DUF2142); Region: DUF2142; cl01937 232721001784 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721001785 Integrase core domain; Region: rve; cl01316 232721001786 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 232721001787 Ligand binding site [chemical binding]; other site 232721001788 Putative Catalytic site [active] 232721001789 DXD motif; other site 232721001790 GtrA-like protein; Region: GtrA; cl00971 232721001791 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 232721001792 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 232721001793 inhibitor-cofactor binding pocket; inhibition site 232721001794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721001795 catalytic residue [active] 232721001796 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...; Region: OM_channels; cl00284 232721001797 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 232721001798 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721001799 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 trans-...; Region: HisKA; cd00082 232721001800 dimer interface [polypeptide binding]; other site 232721001801 phosphorylation site [posttranslational modification] 232721001802 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 232721001803 ATP binding site [chemical binding]; other site 232721001804 Mg2+ binding site [ion binding]; other site 232721001805 G-X-G motif; other site 232721001806 Response regulator receiver domain; Region: Response_reg; pfam00072 232721001807 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 232721001808 active site 232721001809 phosphorylation site [posttranslational modification] 232721001810 intermolecular recognition site; other site 232721001811 dimerization interface [polypeptide binding]; other site 232721001812 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 232721001813 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 232721001814 active site 232721001815 phosphorylation site [posttranslational modification] 232721001816 intermolecular recognition site; other site 232721001817 dimerization interface [polypeptide binding]; other site 232721001818 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...; Region: LuxR_C_like; cd06170 232721001819 DNA binding residues [nucleotide binding] 232721001820 dimerization interface [polypeptide binding]; other site 232721001821 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 232721001822 active site 232721001823 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 232721001824 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 232721001825 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 232721001826 putative ADP-binding pocket [chemical binding]; other site 232721001827 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; cl12011 232721001828 cofactor binding site; other site 232721001829 DNA binding site [nucleotide binding] 232721001830 substrate interaction site [chemical binding]; other site 232721001831 RES domain; Region: RES; cl02411 232721001832 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 232721001833 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 232721001834 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 232721001835 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 232721001836 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 232721001837 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 232721001838 Integrase core domain; Region: rve; cl01316 232721001839 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 232721001840 Transposase domain (DUF772); Region: DUF772; cl12084 232721001841 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721001842 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 232721001843 putative ADP-binding pocket [chemical binding]; other site 232721001844 SapC; Region: SapC; pfam07277 232721001845 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 232721001846 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 232721001847 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 232721001848 Walker A/P-loop; other site 232721001849 ATP binding site [chemical binding]; other site 232721001850 Q-loop/lid; other site 232721001851 ABC transporter signature motif; other site 232721001852 Walker B; other site 232721001853 D-loop; other site 232721001854 H-loop/switch region; other site 232721001855 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 232721001856 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 232721001857 Walker A/P-loop; other site 232721001858 ATP binding site [chemical binding]; other site 232721001859 Q-loop/lid; other site 232721001860 ABC transporter signature motif; other site 232721001861 Walker B; other site 232721001862 D-loop; other site 232721001863 H-loop/switch region; other site 232721001864 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 232721001865 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 232721001866 Outer membrane efflux protein; Region: OEP; pfam02321 232721001867 Outer membrane efflux protein; Region: OEP; pfam02321 232721001868 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_6; cd04955 232721001869 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 232721001870 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases...; Region: GT_MraY_like; cd06912 232721001871 Mg++ binding site [ion binding]; other site 232721001872 putative catalytic motif [active] 232721001873 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...; Region: AAK_NAGK-C; cd04250 232721001874 feedback inhibition sensing region; other site 232721001875 homohexameric interface [polypeptide binding]; other site 232721001876 nucleotide binding site [chemical binding]; other site 232721001877 N-acetyl-L-glutamate binding site [chemical binding]; other site 232721001878 division inhibitor protein; Provisional; Region: slmA; PRK09480 232721001879 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721001880 Transposase domain (DUF772); Region: DUF772; cl12084 232721001881 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721001882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721001883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721001884 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 232721001885 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 232721001886 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721001887 active site 232721001888 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 232721001889 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 232721001890 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 232721001891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721001892 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721001893 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721001894 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 232721001895 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 232721001896 substrate binding site [chemical binding]; other site 232721001897 oxyanion hole (OAH) forming residues; other site 232721001898 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 232721001899 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 232721001900 dimer interface [polypeptide binding]; other site 232721001901 active site 232721001902 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721001903 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 232721001904 enoyl-CoA hydratase; Provisional; Region: PRK06688 232721001905 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 232721001906 substrate binding site [chemical binding]; other site 232721001907 oxyanion hole (OAH) forming residues; other site 232721001908 trimer interface [polypeptide binding]; other site 232721001909 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 232721001910 CoenzymeA binding site [chemical binding]; other site 232721001911 subunit interaction site [polypeptide binding]; other site 232721001912 PHB binding site; other site 232721001913 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 232721001914 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...; Region: BFIT_BACH; cd03442 232721001915 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 232721001916 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 232721001917 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 232721001918 Walker A/P-loop; other site 232721001919 ATP binding site [chemical binding]; other site 232721001920 Q-loop/lid; other site 232721001921 ABC transporter signature motif; other site 232721001922 Walker B; other site 232721001923 D-loop; other site 232721001924 H-loop/switch region; other site 232721001925 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 232721001926 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 232721001927 DctM-like transporters; Region: DctM; pfam06808 232721001928 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721001929 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 232721001930 cell density-dependent motility repressor; Provisional; Region: PRK10082 232721001931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001932 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 232721001933 dimerization interface [polypeptide binding]; other site 232721001934 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 232721001935 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...; Region: PBPb; cd00134 232721001936 substrate binding pocket [chemical binding]; other site 232721001937 membrane-bound complex binding site; other site 232721001938 hinge residues; other site 232721001939 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 232721001940 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...; Region: PBPb; cd00134 232721001941 substrate binding pocket [chemical binding]; other site 232721001942 membrane-bound complex binding site; other site 232721001943 hinge residues; other site 232721001944 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721001945 dimer interface [polypeptide binding]; other site 232721001946 conserved gate region; other site 232721001947 putative PBP binding loops; other site 232721001948 ABC-ATPase subunit interface; other site 232721001949 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 232721001950 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721001951 dimer interface [polypeptide binding]; other site 232721001952 conserved gate region; other site 232721001953 putative PBP binding loops; other site 232721001954 ABC-ATPase subunit interface; other site 232721001955 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 232721001956 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 232721001957 Walker A/P-loop; other site 232721001958 ATP binding site [chemical binding]; other site 232721001959 Q-loop/lid; other site 232721001960 ABC transporter signature motif; other site 232721001961 Walker B; other site 232721001962 D-loop; other site 232721001963 H-loop/switch region; other site 232721001964 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 232721001965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721001966 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721001967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721001968 Cytochrome c; Region: Cytochrom_C; cl11414 232721001969 Cytochrome c; Region: Cytochrom_C; cl11414 232721001970 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 232721001971 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 232721001972 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 232721001973 G1 box; other site 232721001974 putative GEF interaction site [polypeptide binding]; other site 232721001975 GTP/Mg2+ binding site [chemical binding]; other site 232721001976 Switch I region; other site 232721001977 G2 box; other site 232721001978 G3 box; other site 232721001979 Switch II region; other site 232721001980 G4 box; other site 232721001981 G5 box; other site 232721001982 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...; Region: Translation_Factor_II_like; cl02787 232721001983 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 232721001984 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 232721001985 oligomerization interface [polypeptide binding]; other site 232721001986 active site 232721001987 NAD+ binding site [chemical binding]; other site 232721001988 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; cl09940 232721001989 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; cl12011 232721001990 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; cl12011 232721001991 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 232721001992 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...; Region: MTHFR; cd00537 232721001993 FAD binding site [chemical binding]; other site 232721001994 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 232721001995 Protein of unknown function (DUF519); Region: DUF519; cl04492 232721001996 Protein kinase domain; Region: Pkinase; pfam00069 232721001997 Catalytic domain of Protein Kinases; Region: PKc; cd00180 232721001998 active site 232721001999 ATP binding site [chemical binding]; other site 232721002000 substrate binding site [chemical binding]; other site 232721002001 activation loop (A-loop); other site 232721002002 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 232721002003 23S rRNA interface [nucleotide binding]; other site 232721002004 L3 interface [polypeptide binding]; other site 232721002005 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 232721002006 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 232721002007 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 232721002008 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 232721002009 putative peptidase; Provisional; Region: PRK11649 232721002010 Peptidase family M23; Region: Peptidase_M23; pfam01551 232721002011 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 232721002012 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 232721002013 active site 232721002014 HIGH motif; other site 232721002015 dimer interface [polypeptide binding]; other site 232721002016 KMSKS motif; other site 232721002017 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 232721002018 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 232721002019 octamerization interface [polypeptide binding]; other site 232721002020 diferric-oxygen binding site [ion binding]; other site 232721002021 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721002022 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 232721002023 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 232721002024 dimerization interface [polypeptide binding]; other site 232721002025 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 232721002026 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 232721002027 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 232721002028 Substrate binding site [chemical binding]; other site 232721002029 Mg++ binding site [ion binding]; other site 232721002030 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 232721002031 active site 232721002032 substrate binding site [chemical binding]; other site 232721002033 CoA binding site [chemical binding]; other site 232721002034 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 trans-...; Region: HisKA; cd00082 232721002035 dimer interface [polypeptide binding]; other site 232721002036 phosphorylation site [posttranslational modification] 232721002037 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 232721002038 ATP binding site [chemical binding]; other site 232721002039 Mg2+ binding site [ion binding]; other site 232721002040 G-X-G motif; other site 232721002041 chaperone protein DnaJ; Provisional; Region: PRK14299 232721002042 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...; Region: DnaJ; cd06257 232721002043 HSP70 interaction site [polypeptide binding]; other site 232721002044 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 232721002045 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721002046 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 232721002047 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...; Region: GFAT; cd00714 232721002048 glutaminase active site [active] 232721002049 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 232721002050 dimer interface [polypeptide binding]; other site 232721002051 active site 232721002052 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 232721002053 dimer interface [polypeptide binding]; other site 232721002054 active site 232721002055 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 232721002056 NAD binding site [chemical binding]; other site 232721002057 substrate binding site [chemical binding]; other site 232721002058 putative active site [active] 232721002059 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 232721002060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721002061 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 232721002062 putative effector binding pocket; other site 232721002063 dimerization interface [polypeptide binding]; other site 232721002064 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 232721002065 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 232721002066 putative NAD(P) binding site [chemical binding]; other site 232721002067 putative substrate binding site [chemical binding]; other site 232721002068 catalytic Zn binding site [ion binding]; other site 232721002069 structural Zn binding site [ion binding]; other site 232721002070 dimer interface [polypeptide binding]; other site 232721002071 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 232721002072 rRNA binding site [nucleotide binding]; other site 232721002073 predicted 30S ribosome binding site; other site 232721002074 CHASE3 domain; Region: CHASE3; cl05000 232721002075 Ezrin/radixin/moesin family; Region: ERM; pfam00769 232721002076 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 trans-...; Region: HisKA; cl00080 232721002077 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 232721002078 ATP binding site [chemical binding]; other site 232721002079 Mg2+ binding site [ion binding]; other site 232721002080 G-X-G motif; other site 232721002081 Response regulator receiver domain; Region: Response_reg; pfam00072 232721002082 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 232721002083 active site 232721002084 phosphorylation site [posttranslational modification] 232721002085 intermolecular recognition site; other site 232721002086 dimerization interface [polypeptide binding]; other site 232721002087 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 232721002088 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 232721002089 active site 232721002090 phosphorylation site [posttranslational modification] 232721002091 intermolecular recognition site; other site 232721002092 dimerization interface [polypeptide binding]; other site 232721002093 Response regulator receiver domain; Region: Response_reg; pfam00072 232721002094 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 232721002095 active site 232721002096 phosphorylation site [posttranslational modification] 232721002097 intermolecular recognition site; other site 232721002098 dimerization interface [polypeptide binding]; other site 232721002099 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 232721002100 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 232721002101 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; cl12011 232721002102 CheB methylesterase; Region: CheB_methylest; pfam01339 232721002103 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 232721002104 Response regulator receiver domain; Region: Response_reg; pfam00072 232721002105 active site 232721002106 phosphorylation site [posttranslational modification] 232721002107 intermolecular recognition site; other site 232721002108 dimerization interface [polypeptide binding]; other site 232721002109 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 trans-...; Region: HisKA; cd00082 232721002110 dimer interface [polypeptide binding]; other site 232721002111 phosphorylation site [posttranslational modification] 232721002112 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 232721002113 ATP binding site [chemical binding]; other site 232721002114 Mg2+ binding site [ion binding]; other site 232721002115 G-X-G motif; other site 232721002116 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 232721002117 active site 232721002118 phosphorylation site [posttranslational modification] 232721002119 intermolecular recognition site; other site 232721002120 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 232721002121 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 232721002122 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721002123 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 232721002124 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 232721002125 catalytic residues [active] 232721002126 CreA protein; Region: CreA; cl01154 232721002127 cyanophycin synthetase; Provisional; Region: PRK14016 232721002128 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721002129 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 232721002130 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 232721002131 cyanophycin synthetase; Provisional; Region: PRK14016 232721002132 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721002133 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 232721002134 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 232721002135 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 232721002136 Walker A/P-loop; other site 232721002137 ATP binding site [chemical binding]; other site 232721002138 Q-loop/lid; other site 232721002139 ABC transporter signature motif; other site 232721002140 Walker B; other site 232721002141 D-loop; other site 232721002142 H-loop/switch region; other site 232721002143 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 232721002144 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cd00051 232721002145 Ca2+ binding site [ion binding]; other site 232721002146 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 232721002147 general secretion pathway protein F; Region: GspF; TIGR02120 232721002148 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 232721002149 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 232721002150 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 232721002151 diguanylate cyclase; Provisional; Region: PRK09894 232721002152 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 232721002153 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 232721002154 Walker A motif; other site 232721002155 ATP binding site [chemical binding]; other site 232721002156 Walker B motif; other site 232721002157 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 232721002158 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 232721002159 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 232721002160 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 232721002161 General secretion pathway, M protein; Region: GspM; cl01222 232721002162 GspL cytoplasmic actin-ATPase-like region; Region: GspL; pfam05134 232721002163 General secretion pathway protein K; Region: GspK; pfam03934 232721002164 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 232721002165 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 232721002166 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 232721002167 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 232721002168 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 232721002169 threonine dehydratase; Reviewed; Region: PRK09224 232721002170 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 232721002171 tetramer interface [polypeptide binding]; other site 232721002172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721002173 catalytic residue [active] 232721002174 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 232721002175 putative Ile/Val binding site [chemical binding]; other site 232721002176 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 232721002177 putative Ile/Val binding site [chemical binding]; other site 232721002178 OsmC-like protein; Region: OsmC; cl00767 232721002179 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 232721002180 diiron binding motif [ion binding]; other site 232721002181 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...; Region: gram_neg_porins; cd00342 232721002182 trimer interface [polypeptide binding]; other site 232721002183 eyelet of channel; other site 232721002184 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...; Region: gram_neg_porins; cd00342 232721002185 trimer interface [polypeptide binding]; other site 232721002186 eyelet of channel; other site 232721002187 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 232721002188 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 232721002189 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 232721002190 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721002191 dimer interface [polypeptide binding]; other site 232721002192 conserved gate region; other site 232721002193 putative PBP binding loops; other site 232721002194 ABC-ATPase subunit interface; other site 232721002195 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 232721002196 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 232721002197 metal binding site [ion binding]; metal-binding site 232721002198 putative dimer interface [polypeptide binding]; other site 232721002199 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 232721002200 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 232721002201 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 232721002202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721002203 dimer interface [polypeptide binding]; other site 232721002204 conserved gate region; other site 232721002205 putative PBP binding loops; other site 232721002206 ABC-ATPase subunit interface; other site 232721002207 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 232721002208 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 232721002209 Walker A/P-loop; other site 232721002210 ATP binding site [chemical binding]; other site 232721002211 Q-loop/lid; other site 232721002212 ABC transporter signature motif; other site 232721002213 Walker B; other site 232721002214 D-loop; other site 232721002215 H-loop/switch region; other site 232721002216 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 232721002217 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 232721002218 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 232721002219 Walker A/P-loop; other site 232721002220 ATP binding site [chemical binding]; other site 232721002221 Q-loop/lid; other site 232721002222 ABC transporter signature motif; other site 232721002223 Walker B; other site 232721002224 D-loop; other site 232721002225 H-loop/switch region; other site 232721002226 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 232721002227 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 232721002228 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 232721002229 active site 232721002230 metal binding site [ion binding]; metal-binding site 232721002231 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 232721002232 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 232721002233 substrate binding site [chemical binding]; other site 232721002234 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 232721002235 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...; Region: SIS_RpiR; cd05013 232721002236 putative active site [active] 232721002237 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 232721002238 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 232721002239 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 232721002240 transaldolase-like protein; Provisional; Region: PTZ00411 232721002241 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 232721002242 active site 232721002243 dimer interface [polypeptide binding]; other site 232721002244 catalytic residue [active] 232721002245 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 232721002246 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 232721002247 active site 232721002248 dimer interface [polypeptide binding]; other site 232721002249 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 232721002250 dimer interface [polypeptide binding]; other site 232721002251 active site 232721002252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721002253 metal binding site [ion binding]; metal-binding site 232721002254 active site 232721002255 I-site; other site 232721002256 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 232721002257 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 232721002258 ring oligomerisation interface [polypeptide binding]; other site 232721002259 ATP/Mg binding site [chemical binding]; other site 232721002260 stacking interactions; other site 232721002261 hinge regions; other site 232721002262 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...; Region: cpn10; cd00320 232721002263 oligomerisation interface [polypeptide binding]; other site 232721002264 mobile loop; other site 232721002265 roof hairpin; other site 232721002266 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 232721002267 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721002268 active site 232721002269 nucleotide binding site [chemical binding]; other site 232721002270 HIGH motif; other site 232721002271 KMSKS motif; other site 232721002272 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...; Region: Nudix_Hydrolase; cl00447 232721002273 nudix motif; other site 232721002274 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 232721002275 catalytic triad [active] 232721002276 conserved cis-peptide bond; other site 232721002277 S-adenosylmethionine synthetase; Validated; Region: PRK05250 232721002278 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 232721002279 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 232721002280 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 232721002281 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 232721002282 putative acyl-acceptor binding pocket; other site 232721002283 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 232721002284 putative acyl-acceptor binding pocket; other site 232721002285 short chain dehydrogenase; Validated; Region: PRK05855 232721002286 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 232721002287 G1 box; other site 232721002288 GTP/Mg2+ binding site [chemical binding]; other site 232721002289 Switch I region; other site 232721002290 G2 box; other site 232721002291 G3 box; other site 232721002292 Switch II region; other site 232721002293 G4 box; other site 232721002294 G5 box; other site 232721002295 Cytochrome c; Region: Cytochrom_C; cl11414 232721002296 Cytochrome c; Region: Cytochrom_C; cl11414 232721002297 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 232721002298 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 232721002299 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 232721002300 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 232721002301 Moco binding site; other site 232721002302 metal coordination site [ion binding]; other site 232721002303 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 232721002304 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721002305 diaminopimelate decarboxylase; Region: lysA; TIGR01048 232721002306 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 232721002307 active site 232721002308 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 232721002309 substrate binding site [chemical binding]; other site 232721002310 catalytic residues [active] 232721002311 dimer interface [polypeptide binding]; other site 232721002312 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 232721002313 catalytic residues [active] 232721002314 catalytic nucleophile [active] 232721002315 Presynaptic Site I dimer interface [polypeptide binding]; other site 232721002316 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 232721002317 Synaptic Flat tetramer interface [polypeptide binding]; other site 232721002318 Synaptic Site I dimer interface [polypeptide binding]; other site 232721002319 DNA binding site [nucleotide binding] 232721002320 Zonular occludens toxin (Zot); Region: Zot; cl01706 232721002321 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 232721002322 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 232721002323 Replication initiation factor; Region: Rep_trans; pfam02486 232721002324 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 232721002325 putative iron binding site [ion binding]; other site 232721002326 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 232721002327 Transglycosylase; Region: Transgly; cl07896 232721002328 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 232721002329 Competence protein A; Region: Competence_A; pfam11104 232721002330 GspL cytoplasmic actin-ATPase-like region; Region: GspL; pfam05134 232721002331 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 232721002332 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 232721002333 Pilus assembly protein, PilO; Region: PilO; cl01234 232721002334 Pilus assembly protein, PilP; Region: PilP; cl01235 232721002335 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 232721002336 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 232721002337 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 232721002338 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 232721002339 active site 232721002340 dimer interface [polypeptide binding]; other site 232721002341 metal binding site [ion binding]; metal-binding site 232721002342 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721002343 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 232721002344 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 232721002345 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721002346 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...; Region: AAA; cd00009 232721002347 Walker A motif; other site 232721002348 ATP binding site [chemical binding]; other site 232721002349 Walker B motif; other site 232721002350 arginine finger; other site 232721002351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721002352 Integrase core domain; Region: rve; cl01316 232721002353 Transposase IS200 like; Region: Y1_Tnp; cl00848 232721002354 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 232721002355 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 N-...; Region: GltS; cd00713 232721002356 active site 232721002357 dimer interface [polypeptide binding]; other site 232721002358 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 232721002359 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...; Region: GltS_FMN; cd02808 232721002360 active site 232721002361 FMN binding site [chemical binding]; other site 232721002362 substrate binding site [chemical binding]; other site 232721002363 3Fe-4S cluster binding site [ion binding]; other site 232721002364 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 232721002365 domain interface; other site 232721002366 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 232721002367 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 232721002368 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...; Region: PBPb; cd00134 232721002369 substrate binding pocket [chemical binding]; other site 232721002370 membrane-bound complex binding site; other site 232721002371 hinge residues; other site 232721002372 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 232721002373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721002374 dimer interface [polypeptide binding]; other site 232721002375 conserved gate region; other site 232721002376 putative PBP binding loops; other site 232721002377 ABC-ATPase subunit interface; other site 232721002378 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 232721002379 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 232721002380 Walker A/P-loop; other site 232721002381 ATP binding site [chemical binding]; other site 232721002382 Q-loop/lid; other site 232721002383 ABC transporter signature motif; other site 232721002384 Walker B; other site 232721002385 D-loop; other site 232721002386 H-loop/switch region; other site 232721002387 spermidine synthase; Provisional; Region: PRK00811 232721002388 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; cl12011 232721002389 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 232721002390 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 232721002391 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 232721002392 Walker A/P-loop; other site 232721002393 ATP binding site [chemical binding]; other site 232721002394 Q-loop/lid; other site 232721002395 ABC transporter signature motif; other site 232721002396 Walker B; other site 232721002397 D-loop; other site 232721002398 H-loop/switch region; other site 232721002399 Domain of unknown function DUF140; Region: DUF140; cl00510 232721002400 mce related protein; Region: MCE; cl03606 232721002401 VacJ like lipoprotein; Region: VacJ; cl01073 232721002402 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 232721002403 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 232721002404 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 232721002405 Transposase domain (DUF772); Region: DUF772; cl12084 232721002406 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721002407 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 232721002408 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 232721002409 Walker A/P-loop; other site 232721002410 ATP binding site [chemical binding]; other site 232721002411 Q-loop/lid; other site 232721002412 ABC transporter signature motif; other site 232721002413 Walker B; other site 232721002414 D-loop; other site 232721002415 H-loop/switch region; other site 232721002416 ABC-2 type transporter; Region: ABC2_membrane; cl11417 232721002417 BolA-like protein; Region: BolA; cl00386 232721002418 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 232721002419 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 232721002420 hinge; other site 232721002421 active site 232721002422 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 232721002423 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 232721002424 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 232721002425 NAD binding site [chemical binding]; other site 232721002426 dimerization interface [polypeptide binding]; other site 232721002427 product binding site; other site 232721002428 substrate binding site [chemical binding]; other site 232721002429 zinc binding site [ion binding]; other site 232721002430 catalytic residues [active] 232721002431 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 232721002432 putative active site [active] 232721002433 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 232721002434 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 232721002435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721002436 homodimer interface [polypeptide binding]; other site 232721002437 catalytic residue [active] 232721002438 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 232721002439 putative active site pocket [active] 232721002440 4-fold oligomerization interface [polypeptide binding]; other site 232721002441 metal binding residues [ion binding]; metal-binding site 232721002442 3-fold/trimer interface [polypeptide binding]; other site 232721002443 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 232721002444 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 232721002445 putative active site [active] 232721002446 oxyanion strand; other site 232721002447 catalytic triad [active] 232721002448 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 232721002449 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 232721002450 catalytic residues [active] 232721002451 Spherulation-specific family 4; Region: Spherulin4; pfam12138 232721002452 Predicted membrane protein [Function unknown]; Region: COG4267 232721002453 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_3; cd03813 232721002454 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 232721002455 TM1410 hypothetical-related protein; Region: DUF297; cl00997 232721002456 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 232721002457 UDP-glucose 4-epimerase; Region: PLN02240 232721002458 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 232721002459 NAD binding site [chemical binding]; other site 232721002460 homodimer interface [polypeptide binding]; other site 232721002461 active site 232721002462 substrate binding site [chemical binding]; other site 232721002463 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 232721002464 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)-formimino-5-; Region: HisF; cd04731 232721002465 substrate binding site [chemical binding]; other site 232721002466 glutamase interaction surface [polypeptide binding]; other site 232721002467 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 232721002468 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 232721002469 Predicted membrane protein [Function unknown]; Region: COG3671 232721002470 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 232721002471 active site 232721002472 nucleophile elbow; other site 232721002473 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 232721002474 nucleotide binding site/active site [active] 232721002475 HIT family signature motif; other site 232721002476 catalytic residue [active] 232721002477 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 232721002478 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 232721002479 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 232721002480 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 232721002481 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 232721002482 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 232721002483 protein binding site [polypeptide binding]; other site 232721002484 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 232721002485 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 232721002486 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 232721002487 FAD binding pocket [chemical binding]; other site 232721002488 FAD binding motif [chemical binding]; other site 232721002489 phosphate binding motif [ion binding]; other site 232721002490 beta-alpha-beta structure motif; other site 232721002491 NAD binding pocket [chemical binding]; other site 232721002492 Uncharacterized conserved protein [Function unknown]; Region: COG0327 232721002493 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 232721002494 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 232721002495 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 232721002496 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 232721002497 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 232721002498 [2Fe-2S] cluster binding site [ion binding]; other site 232721002499 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 232721002500 Qi binding site; other site 232721002501 intrachain domain interface; other site 232721002502 interchain domain interface [polypeptide binding]; other site 232721002503 cytochrome b; Provisional; Region: CYTB; MTH00145 232721002504 heme bH binding site [chemical binding]; other site 232721002505 heme bL binding site [chemical binding]; other site 232721002506 Qo binding site; other site 232721002507 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: cytochrome_b_C; cl00193 232721002508 interchain domain interface [polypeptide binding]; other site 232721002509 intrachain domain interface; other site 232721002510 Qi binding site; other site 232721002511 Qo binding site; other site 232721002512 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 232721002513 stringent starvation protein A; Provisional; Region: sspA; PRK09481 232721002514 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 232721002515 C-terminal domain interface [polypeptide binding]; other site 232721002516 putative GSH binding site (G-site) [chemical binding]; other site 232721002517 dimer interface [polypeptide binding]; other site 232721002518 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_C_SspA; cd03186 232721002519 dimer interface [polypeptide binding]; other site 232721002520 N-terminal domain interface [polypeptide binding]; other site 232721002521 Stringent starvation protein B; Region: SspB; cl01120 232721002522 Peptidase family M23; Region: Peptidase_M23; pfam01551 232721002523 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 232721002524 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 232721002525 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 232721002526 nucleotide binding region [chemical binding]; other site 232721002527 SEC-C motif; Region: SEC-C; cl12132 232721002528 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...; Region: OAT; cd02152 232721002529 heterotetramer interface [polypeptide binding]; other site 232721002530 active site pocket [active] 232721002531 cleavage site 232721002532 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 232721002533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721002534 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 232721002535 active site 232721002536 8-oxo-dGMP binding site [chemical binding]; other site 232721002537 nudix motif; other site 232721002538 metal binding site [ion binding]; metal-binding site 232721002539 Domain of unknown function (DUF329); Region: DUF329; cl01144 232721002540 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 232721002541 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 232721002542 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 232721002543 CoA-binding site [chemical binding]; other site 232721002544 ATP-binding [chemical binding]; other site 232721002545 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 232721002546 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 232721002547 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 232721002548 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 232721002549 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 232721002550 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 232721002551 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 232721002552 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 232721002553 Walker A motif; other site 232721002554 ATP binding site [chemical binding]; other site 232721002555 Walker B motif; other site 232721002556 Transposase domain (DUF772); Region: DUF772; cl12084 232721002557 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721002558 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 232721002559 Phage integrase family; Region: Phage_integrase; pfam00589 232721002560 DNA binding site [nucleotide binding] 232721002561 Int/Topo IB signature motif; other site 232721002562 active site 232721002563 Protein of unknown function DUF262; Region: DUF262; cl14890 232721002564 Protein of unknown function DUF262; Region: DUF262; cl14890 232721002565 Predicted transcriptional regulator [Transcription]; Region: COG2378 232721002566 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 232721002567 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; cd00296 232721002568 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 232721002569 active site 232721002570 metal binding site [ion binding]; metal-binding site 232721002571 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 232721002572 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 232721002573 Predicted ATPase [General function prediction only]; Region: COG4637 232721002574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721002575 Uncharacterized conserved protein [Function unknown]; Region: COG4938 232721002576 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 232721002577 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 232721002578 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721002579 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...; Region: AAA; cd00009 232721002580 Walker A motif; other site 232721002581 ATP binding site [chemical binding]; other site 232721002582 Walker B motif; other site 232721002583 arginine finger; other site 232721002584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721002585 Integrase core domain; Region: rve; cl01316 232721002586 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 232721002587 ATP binding site [chemical binding]; other site 232721002588 putative Mg++ binding site [ion binding]; other site 232721002589 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 232721002590 ATP binding site [chemical binding]; other site 232721002591 putative Mg++ binding site [ion binding]; other site 232721002592 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 232721002593 nucleotide binding region [chemical binding]; other site 232721002594 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 232721002595 ATP-binding site [chemical binding]; other site 232721002596 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 232721002597 Fic family protein [Function unknown]; Region: COG3177 232721002598 Fic/DOC family; Region: Fic; cl00960 232721002599 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721002600 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...; Region: AAA; cd00009 232721002601 Walker A motif; other site 232721002602 ATP binding site [chemical binding]; other site 232721002603 Walker B motif; other site 232721002604 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721002605 Integrase core domain; Region: rve; cl01316 232721002606 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 232721002607 octaprenyl diphosphate synthase; Provisional; Region: PRK10888 232721002608 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 232721002609 substrate binding pocket [chemical binding]; other site 232721002610 chain length determination region; other site 232721002611 substrate-Mg2+ binding site; other site 232721002612 catalytic residues [active] 232721002613 aspartate-rich region 1; other site 232721002614 active site lid residues [active] 232721002615 aspartate-rich region 2; other site 232721002616 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 232721002617 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 232721002618 GTPase CgtA; Reviewed; Region: obgE; PRK12299 232721002619 GTP1/OBG; Region: GTP1_OBG; pfam01018 232721002620 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 232721002621 G1 box; other site 232721002622 GTP/Mg2+ binding site [chemical binding]; other site 232721002623 Switch I region; other site 232721002624 G2 box; other site 232721002625 G3 box; other site 232721002626 Switch II region; other site 232721002627 G4 box; other site 232721002628 G5 box; other site 232721002629 gamma-glutamyl kinase; Provisional; Region: PRK05429 232721002630 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 232721002631 nucleotide binding site [chemical binding]; other site 232721002632 homotetrameric interface [polypeptide binding]; other site 232721002633 putative phosphate binding site [ion binding]; other site 232721002634 putative allosteric binding site; other site 232721002635 PUA domain; Region: PUA; cl00607 232721002636 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...; Region: Ap4A_hydrolase_plant_like; cd03671 232721002637 putative active site [active] 232721002638 Ap4A binding site [chemical binding]; other site 232721002639 nudix motif; other site 232721002640 putative metal binding site [ion binding]; other site 232721002641 prolyl-tRNA synthetase; Provisional; Region: PRK09194 232721002642 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 formation...; Region: ProRS_core_prok; cd00779 232721002643 dimer interface [polypeptide binding]; other site 232721002644 motif 1; other site 232721002645 active site 232721002646 motif 2; other site 232721002647 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 single-...; Region: ProRS-INS; cd04334 232721002648 putative deacylase active site [active] 232721002649 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 232721002650 active site 232721002651 motif 3; other site 232721002652 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-...; Region: ProRS_anticodon_short; cd00861 232721002653 anticodon binding site; other site 232721002654 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 catalyze...; Region: LT_GEWL; cd00254 232721002655 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721002656 catalytic residue [active] 232721002657 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 232721002658 Domain of unknown function DUF21; Region: DUF21; pfam01595 232721002659 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 232721002660 Transporter associated domain; Region: CorC_HlyC; pfam03471 232721002661 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 232721002662 putative GSH binding site [chemical binding]; other site 232721002663 catalytic residues [active] 232721002664 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 232721002665 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; cl12011 232721002666 peptide chain release factor 1; Validated; Region: prfA; PRK00591 232721002667 RF-1 domain; Region: RF-1; cl02875 232721002668 RF-1 domain; Region: RF-1; cl02875 232721002669 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 232721002670 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 232721002671 tRNA; other site 232721002672 putative tRNA binding site [nucleotide binding]; other site 232721002673 putative NADP binding site [chemical binding]; other site 232721002674 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 232721002675 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 232721002676 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721002677 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 232721002678 dimerization interface [polypeptide binding]; other site 232721002679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721002680 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 232721002681 N-formylglutamate amidohydrolase; Region: FGase; cl01522 232721002682 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 232721002683 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 232721002684 Mechanosensitive ion channel; Region: MS_channel; pfam00924 232721002685 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 232721002686 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 232721002687 putative active site [active] 232721002688 catalytic site [active] 232721002689 putative metal binding site [ion binding]; other site 232721002690 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 232721002691 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 232721002692 Walker A/P-loop; other site 232721002693 ATP binding site [chemical binding]; other site 232721002694 Q-loop/lid; other site 232721002695 ABC transporter signature motif; other site 232721002696 Walker B; other site 232721002697 D-loop; other site 232721002698 H-loop/switch region; other site 232721002699 TOBE domain; Region: TOBE_2; cl01440 232721002700 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 232721002701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721002702 dimer interface [polypeptide binding]; other site 232721002703 conserved gate region; other site 232721002704 putative PBP binding loops; other site 232721002705 ABC-ATPase subunit interface; other site 232721002706 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 232721002707 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721002708 dimer interface [polypeptide binding]; other site 232721002709 conserved gate region; other site 232721002710 putative PBP binding loops; other site 232721002711 ABC-ATPase subunit interface; other site 232721002712 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 232721002713 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 232721002714 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 232721002715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721002716 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 232721002717 L-serine binding site [chemical binding]; other site 232721002718 ACT domain interface; other site 232721002719 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 232721002720 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 232721002721 FAD binding domain; Region: FAD_binding_4; pfam01565 232721002722 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 232721002723 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 232721002724 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 232721002725 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 232721002726 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 232721002727 HIT family signature motif; other site 232721002728 catalytic residue [active] 232721002729 Protein of unknown function (DUF971); Region: DUF971; cl01414 232721002730 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 232721002731 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 232721002732 S-adenosylmethionine binding site [chemical binding]; other site 232721002733 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; cl12011 232721002734 Tim44-like domain; Region: Tim44; cl09208 232721002735 SCP-2 sterol transfer family; Region: SCP2; cl01225 232721002736 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 232721002737 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 232721002738 Sodium:solute symporter family; Region: SSF; cl00456 232721002739 putative transporter; Provisional; Region: PRK10484 232721002740 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 232721002741 Protein of unknown function (DUF502); Region: DUF502; cl01107 232721002742 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 232721002743 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 232721002744 dimer interface [polypeptide binding]; other site 232721002745 anticodon binding site; other site 232721002746 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 the...; Region: AspRS_core; cd00777 232721002747 homodimer interface [polypeptide binding]; other site 232721002748 motif 1; other site 232721002749 active site 232721002750 motif 2; other site 232721002751 GAD domain; Region: GAD; pfam02938 232721002752 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 the...; Region: AspRS_core; cd00777 232721002753 motif 3; other site 232721002754 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 232721002755 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...; Region: Nudix_Hydrolase; cl00447 232721002756 nudix motif; other site 232721002757 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 232721002758 putative catalytic site [active] 232721002759 putative metal binding site [ion binding]; other site 232721002760 putative phosphate binding site [ion binding]; other site 232721002761 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 232721002762 putative active site [active] 232721002763 catalytic site [active] 232721002764 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 232721002765 putative active site [active] 232721002766 catalytic site [active] 232721002767 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 232721002768 active site 232721002769 Sensors of blue-light using FAD; Region: BLUF; pfam04940 232721002770 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 232721002771 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 232721002772 LysE type translocator; Region: LysE; cl00565 232721002773 amidase; Provisional; Region: PRK07042 232721002774 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 232721002775 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 232721002776 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 232721002777 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 232721002778 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 232721002779 Walker A/P-loop; other site 232721002780 ATP binding site [chemical binding]; other site 232721002781 Q-loop/lid; other site 232721002782 ABC transporter signature motif; other site 232721002783 Walker B; other site 232721002784 D-loop; other site 232721002785 H-loop/switch region; other site 232721002786 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 232721002787 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 232721002788 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 232721002789 Walker A/P-loop; other site 232721002790 ATP binding site [chemical binding]; other site 232721002791 Q-loop/lid; other site 232721002792 ABC transporter signature motif; other site 232721002793 Walker B; other site 232721002794 D-loop; other site 232721002795 H-loop/switch region; other site 232721002796 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 232721002797 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 232721002798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721002799 dimer interface [polypeptide binding]; other site 232721002800 conserved gate region; other site 232721002801 putative PBP binding loops; other site 232721002802 ABC-ATPase subunit interface; other site 232721002803 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 232721002804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721002805 dimer interface [polypeptide binding]; other site 232721002806 conserved gate region; other site 232721002807 putative PBP binding loops; other site 232721002808 ABC-ATPase subunit interface; other site 232721002809 hypothetical protein; Provisional; Region: PRK13795 232721002810 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 232721002811 putative active site [active] 232721002812 catalytic residue [active] 232721002813 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 232721002814 5S rRNA interface [nucleotide binding]; other site 232721002815 CTC domain interface; other site 232721002816 L16 interface [polypeptide binding]; other site 232721002817 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 232721002818 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721002819 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 232721002820 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 232721002821 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 232721002822 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 232721002823 binding surface 232721002824 TPR motif; other site 232721002825 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 232721002826 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 232721002827 DNA binding site [nucleotide binding] 232721002828 catalytic residue [active] 232721002829 H2TH interface [polypeptide binding]; other site 232721002830 putative catalytic residues [active] 232721002831 turnover-facilitating residue; other site 232721002832 intercalation triad [nucleotide binding]; other site 232721002833 8OG recognition residue [nucleotide binding]; other site 232721002834 putative reading head residues; other site 232721002835 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 232721002836 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 232721002837 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721002838 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 232721002839 Switch II region; other site 232721002840 G3 box; other site 232721002841 G4 box; other site 232721002842 G5 box; other site 232721002843 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 232721002844 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 232721002845 minor groove reading motif; other site 232721002846 helix-hairpin-helix signature motif; other site 232721002847 substrate binding pocket [chemical binding]; other site 232721002848 active site 232721002849 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 232721002850 DNA binding and oxoG recognition site [nucleotide binding] 232721002851 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 232721002852 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 232721002853 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 232721002854 Walker A/P-loop; other site 232721002855 ATP binding site [chemical binding]; other site 232721002856 Q-loop/lid; other site 232721002857 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 232721002858 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 232721002859 ABC transporter signature motif; other site 232721002860 Walker B; other site 232721002861 D-loop; other site 232721002862 H-loop/switch region; other site 232721002863 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 232721002864 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 232721002865 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 232721002866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721002867 HrcA protein C terminal domain; Region: HrcA; pfam01628 232721002868 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 232721002869 putative transposase OrfB; Reviewed; Region: PHA02517 232721002870 Integrase core domain; Region: rve; cl01316 232721002871 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721002872 Integrase core domain; Region: rve; cl01316 232721002873 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 232721002874 Predicted transcriptional regulator [Transcription]; Region: COG5340 232721002875 Transposase, Mutator family; Region: Transposase_mut; pfam00872 232721002876 MULE transposase domain; Region: MULE; pfam10551 232721002877 Domain of unknown function (DU1801); Region: DUF1801; cl01838 232721002878 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 232721002879 catalytic triad [active] 232721002880 conserved cis-peptide bond; other site 232721002881 Protein of unknown function (DUF421); Region: DUF421; cl00990 232721002882 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 232721002883 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 232721002884 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 232721002885 FeS/SAM binding site; other site 232721002886 HemN C-terminal region; Region: HemN_C; pfam06969 232721002887 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 Ham1-...; Region: HAM1; cd00515 232721002888 active site 232721002889 dimerization interface [polypeptide binding]; other site 232721002890 ribonuclease PH; Reviewed; Region: rph; PRK00173 232721002891 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 232721002892 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 232721002893 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 232721002894 Protein phosphatase 2C; Region: PP2C; pfam00481 232721002895 Active site [active] 232721002896 Protein kinase domain; Region: Pkinase; pfam00069 232721002897 Catalytic domain of Protein Kinases; Region: PKc; cd00180 232721002898 active site 232721002899 ATP binding site [chemical binding]; other site 232721002900 substrate binding site [chemical binding]; other site 232721002901 activation loop (A-loop); other site 232721002902 hypothetical protein; Provisional; Region: PRK11820 232721002903 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 232721002904 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 232721002905 integrase; Provisional; Region: PRK09692 232721002906 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 232721002907 active site 232721002908 Int/Topo IB signature motif; other site 232721002909 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721002910 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 232721002911 replicative DNA helicase; Region: DnaB; TIGR00665 232721002912 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 232721002913 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 232721002914 Walker A motif; other site 232721002915 ATP binding site [chemical binding]; other site 232721002916 Walker B motif; other site 232721002917 DNA binding loops [nucleotide binding] 232721002918 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721002919 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 232721002920 DNA-binding interface [nucleotide binding]; DNA binding site 232721002921 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 232721002922 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721002923 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...; Region: GMPK; cd00071 232721002924 catalytic site [active] 232721002925 G-X2-G-X-G-K; other site 232721002926 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 232721002927 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 232721002928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721002929 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 232721002930 synthetase active site [active] 232721002931 NTP binding site [chemical binding]; other site 232721002932 metal binding site [ion binding]; metal-binding site 232721002933 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...; Region: TGS_RelA_SpoT; cd01668 232721002934 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 232721002935 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 232721002936 domain; Region: GreA_GreB_N; pfam03449 232721002937 C-term; Region: GreA_GreB; pfam01272 232721002938 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...; Region: Ribosomal_S15p_S13e; cd00353 232721002939 16S/18S rRNA binding site [nucleotide binding]; other site 232721002940 S13e-L30e interaction site [polypeptide binding]; other site 232721002941 25S rRNA binding site [nucleotide binding]; other site 232721002942 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 232721002943 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 232721002944 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 232721002945 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 232721002946 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 232721002947 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 232721002948 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 232721002949 putative nucleic acid binding region [nucleotide binding]; other site 232721002950 G-X-X-G motif; other site 232721002951 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 232721002952 RNA binding site [nucleotide binding]; other site 232721002953 domain interface; other site 232721002954 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 232721002955 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 232721002956 NAD(P) binding site [chemical binding]; other site 232721002957 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 232721002958 substrate binding site [chemical binding]; other site 232721002959 dimer interface [polypeptide binding]; other site 232721002960 catalytic triad [active] 232721002961 Preprotein translocase SecG subunit; Region: SecG; cl09123 232721002962 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 232721002963 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 232721002964 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 232721002965 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 232721002966 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 232721002967 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...; Region: TRX_Fd_NuoE; cd03064 232721002968 putative dimer interface [polypeptide binding]; other site 232721002969 [2Fe-2S] cluster binding site [ion binding]; other site 232721002970 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 232721002971 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 232721002972 SLBB domain; Region: SLBB; pfam10531 232721002973 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 232721002974 NADH dehydrogenase subunit G; Validated; Region: PRK09129 232721002975 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 232721002976 catalytic loop [active] 232721002977 iron binding site [ion binding]; other site 232721002978 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 232721002979 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...; Region: MopB_NDH-1_NuoG2; cd02772 232721002980 NADH dehydrogenase; Region: NADHdh; cl00469 232721002981 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 232721002982 4Fe-4S binding domain; Region: Fer4; cl02805 232721002983 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 232721002984 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 232721002985 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 232721002986 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 232721002987 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 232721002988 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 232721002989 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 232721002990 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 232721002991 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 232721002992 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 232721002993 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 232721002994 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 232721002995 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 232721002996 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 232721002997 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 232721002998 Walker A/P-loop; other site 232721002999 ATP binding site [chemical binding]; other site 232721003000 Q-loop/lid; other site 232721003001 ABC transporter signature motif; other site 232721003002 Walker B; other site 232721003003 D-loop; other site 232721003004 H-loop/switch region; other site 232721003005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721003006 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 232721003007 Walker A/P-loop; other site 232721003008 ATP binding site [chemical binding]; other site 232721003009 Q-loop/lid; other site 232721003010 ABC transporter signature motif; other site 232721003011 D-loop; other site 232721003012 H-loop/switch region; other site 232721003013 LysE type translocator; Region: LysE; cl00565 232721003014 glutamate dehydrogenase; Provisional; Region: PRK09414 232721003015 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 232721003016 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 232721003017 NAD(P) binding site [chemical binding]; other site 232721003018 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 232721003019 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 232721003020 ATP binding site [chemical binding]; other site 232721003021 Mg2+ binding site [ion binding]; other site 232721003022 G-X-G motif; other site 232721003023 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 232721003024 ATP binding site [chemical binding]; other site 232721003025 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 232721003026 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 232721003027 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 232721003028 Cupin domain; Region: Cupin_2; cl09118 232721003029 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 232721003030 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 232721003031 active site 232721003032 metal binding site [ion binding]; metal-binding site 232721003033 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 232721003034 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 232721003035 Membrane transport protein; Region: Mem_trans; cl09117 232721003036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721003037 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 232721003038 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 232721003039 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 232721003040 Int/Topo IB signature motif; other site 232721003041 active site 232721003042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721003043 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 232721003044 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 232721003045 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; cl00290 232721003046 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721003047 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 232721003048 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; cl00290 232721003049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721003050 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 232721003051 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 232721003052 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 232721003053 trimer interface [polypeptide binding]; other site 232721003054 putative metal binding site [ion binding]; other site 232721003055 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 232721003056 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 232721003057 dimerization interface [polypeptide binding]; other site 232721003058 domain crossover interface; other site 232721003059 redox-dependent activation switch; other site 232721003060 Septum formation initiator; Region: DivIC; cl11433 232721003061 enolase; Provisional; Region: eno; PRK00077 232721003062 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 232721003063 dimer interface [polypeptide binding]; other site 232721003064 metal binding site [ion binding]; metal-binding site 232721003065 substrate binding pocket [chemical binding]; other site 232721003066 NeuB family; Region: NeuB; cl00496 232721003067 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 232721003068 CTP synthetase; Validated; Region: pyrG; PRK05380 232721003069 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...; Region: CTGs; cd03113 232721003070 Catalytic site [active] 232721003071 Active site [active] 232721003072 UTP binding site [chemical binding]; other site 232721003073 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 232721003074 active site 232721003075 putative oxyanion hole; other site 232721003076 catalytic triad [active] 232721003077 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 232721003078 Flavoprotein; Region: Flavoprotein; cl08021 232721003079 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 232721003080 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 232721003081 trimer interface [polypeptide binding]; other site 232721003082 active site 232721003083 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 232721003084 Cupin superfamily protein; Region: Cupin_4; pfam08007 232721003085 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721003086 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 232721003087 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 232721003088 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 232721003089 dihydrodipicolinate synthase; Region: dapA; TIGR00674 232721003090 dimer interface [polypeptide binding]; other site 232721003091 active site 232721003092 catalytic residue [active] 232721003093 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; cl12011 232721003094 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721003095 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 232721003096 putative substrate translocation pore; other site 232721003097 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 232721003098 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 232721003099 ATP binding site [chemical binding]; other site 232721003100 Mg2+ binding site [ion binding]; other site 232721003101 G-X-G motif; other site 232721003102 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 232721003103 anchoring element; other site 232721003104 dimer interface [polypeptide binding]; other site 232721003105 ATP binding site [chemical binding]; other site 232721003106 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 232721003107 active site 232721003108 metal binding site [ion binding]; metal-binding site 232721003109 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 232721003110 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 catalyze...; Region: LT_GEWL; cd00254 232721003111 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721003112 catalytic residue [active] 232721003113 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 232721003114 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 in...; Region: TOP4c; cd00187 232721003115 CAP-like domain; other site 232721003116 Active site [active] 232721003117 primary dimer interface [polypeptide binding]; other site 232721003118 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 232721003119 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721003120 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721003121 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721003122 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 232721003123 homotrimer interaction site [polypeptide binding]; other site 232721003124 putative active site [active] 232721003125 Uncharacterized conserved protein [Function unknown]; Region: COG2308 232721003126 Domain of unknown function (DUF404); Region: DUF404; pfam04169 232721003127 Domain of unknown function (DUF407); Region: DUF407; pfam04174 232721003128 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 232721003129 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 232721003130 transcriptional regulator; Provisional; Region: PRK10632 232721003131 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721003132 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 232721003133 putative effector binding pocket; other site 232721003134 putative dimerization interface [polypeptide binding]; other site 232721003135 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721003136 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 232721003137 tetramerization interface [polypeptide binding]; other site 232721003138 NAD(P) binding site [chemical binding]; other site 232721003139 catalytic residues [active] 232721003140 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 232721003141 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 232721003142 N-terminal plug; other site 232721003143 ligand-binding site [chemical binding]; other site 232721003144 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 232721003145 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 232721003146 N-terminal plug; other site 232721003147 ligand-binding site [chemical binding]; other site 232721003148 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 232721003149 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 232721003150 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 232721003151 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...; Region: TST_Repeat_1; cd01448 232721003152 active site residue [active] 232721003153 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 232721003154 active site residue [active] 232721003155 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 232721003156 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 232721003157 [2Fe-2S] cluster binding site [ion binding]; other site 232721003158 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 232721003159 alpha subunit interface [polypeptide binding]; other site 232721003160 active site 232721003161 substrate binding site [chemical binding]; other site 232721003162 Fe binding site [ion binding]; other site 232721003163 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 232721003164 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 232721003165 substrate binding pocket [chemical binding]; other site 232721003166 chain length determination region; other site 232721003167 substrate-Mg2+ binding site; other site 232721003168 catalytic residues [active] 232721003169 aspartate-rich region 1; other site 232721003170 active site lid residues [active] 232721003171 aspartate-rich region 2; other site 232721003172 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 232721003173 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 232721003174 TPP-binding site; other site 232721003175 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 232721003176 PYR/PP interface [polypeptide binding]; other site 232721003177 dimer interface [polypeptide binding]; other site 232721003178 TPP binding site [chemical binding]; other site 232721003179 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 232721003180 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 232721003181 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721003182 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721003183 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 232721003184 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 232721003185 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 232721003186 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 232721003187 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 232721003188 active site 232721003189 phosphorylation site [posttranslational modification] 232721003190 intermolecular recognition site; other site 232721003191 dimerization interface [polypeptide binding]; other site 232721003192 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 232721003193 Zn2+ binding site [ion binding]; other site 232721003194 Mg2+ binding site [ion binding]; other site 232721003195 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 232721003196 active site 232721003197 dimerization interface [polypeptide binding]; other site 232721003198 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 232721003199 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 232721003200 serine O-acetyltransferase; Region: cysE; TIGR01172 232721003201 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 L-...; Region: LbH_SAT; cd03354 232721003202 trimer interface [polypeptide binding]; other site 232721003203 active site 232721003204 substrate binding site [chemical binding]; other site 232721003205 CoA binding site [chemical binding]; other site 232721003206 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...; Region: Nitroreductase; cd02136 232721003207 putative FMN binding site [chemical binding]; other site 232721003208 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 232721003209 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 232721003210 tetramer interface [polypeptide binding]; other site 232721003211 catalytic Zn binding site [ion binding]; other site 232721003212 NADP binding site [chemical binding]; other site 232721003213 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 232721003214 Sulfate transporter family; Region: Sulfate_transp; cl00967 232721003215 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 232721003216 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 232721003217 MPT binding site; other site 232721003218 trimer interface [polypeptide binding]; other site 232721003219 Protein of unknown function (DUF615); Region: DUF615; cl01147 232721003220 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 232721003221 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 232721003222 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 232721003223 EamA-like transporter family; Region: EamA; cl01037 232721003224 tellurium resistance terB-like protein; Region: terB_like; cd07177 232721003225 metal binding site [ion binding]; metal-binding site 232721003226 Domain of unknown function (DUF697); Region: DUF697; cl12064 232721003227 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 232721003228 Fumarase C-terminus; Region: Fumerase_C; cl00795 232721003229 fumarate hydratase; Reviewed; Region: fumC; PRK00485 232721003230 Class II fumarases; Region: Fumarase_classII; cd01362 232721003231 active site 232721003232 tetramer interface [polypeptide binding]; other site 232721003233 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 232721003234 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 232721003235 ligand binding site [chemical binding]; other site 232721003236 flexible hinge region; other site 232721003237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721003238 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 232721003239 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 232721003240 active site 232721003241 phosphorylation site [posttranslational modification] 232721003242 intermolecular recognition site; other site 232721003243 dimerization interface [polypeptide binding]; other site 232721003244 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...; Region: trans_reg_C; cd00383 232721003245 DNA binding site [nucleotide binding] 232721003246 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 232721003247 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721003248 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 trans-...; Region: HisKA; cd00082 232721003249 dimer interface [polypeptide binding]; other site 232721003250 phosphorylation site [posttranslational modification] 232721003251 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 232721003252 ATP binding site [chemical binding]; other site 232721003253 Mg2+ binding site [ion binding]; other site 232721003254 G-X-G motif; other site 232721003255 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 232721003256 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 232721003257 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721003258 Integrase core domain; Region: rve; cl01316 232721003259 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 232721003260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721003261 dimer interface [polypeptide binding]; other site 232721003262 conserved gate region; other site 232721003263 putative PBP binding loops; other site 232721003264 ABC-ATPase subunit interface; other site 232721003265 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 232721003266 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 232721003267 Walker A/P-loop; other site 232721003268 ATP binding site [chemical binding]; other site 232721003269 Q-loop/lid; other site 232721003270 ABC transporter signature motif; other site 232721003271 Walker B; other site 232721003272 D-loop; other site 232721003273 H-loop/switch region; other site 232721003274 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 232721003275 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 232721003276 acetyl-CoA synthetase; Provisional; Region: PRK00174 232721003277 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 232721003278 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721003279 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721003280 Cytochrome c; Region: Cytochrom_C; cl11414 232721003281 Dehydratase family; Region: ILVD_EDD; cl00340 232721003282 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 232721003283 Dehydratase family; Region: ILVD_EDD; cl00340 232721003284 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 232721003285 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 232721003286 CoenzymeA binding site [chemical binding]; other site 232721003287 subunit interaction site [polypeptide binding]; other site 232721003288 PHB binding site; other site 232721003289 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 232721003290 Ferritin-like domain; Region: Ferritin; pfam00210 232721003291 heme binding site [chemical binding]; other site 232721003292 ferroxidase pore; other site 232721003293 ferroxidase diiron center [ion binding]; other site 232721003294 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 232721003295 Transcriptional regulators [Transcription]; Region: GntR; COG1802 232721003296 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721003297 DNA-binding site [nucleotide binding]; DNA binding site 232721003298 FCD domain; Region: FCD; cl11656 232721003299 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 232721003300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721003301 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 232721003302 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 232721003303 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 232721003304 substrate binding site [chemical binding]; other site 232721003305 oxyanion hole (OAH) forming residues; other site 232721003306 trimer interface [polypeptide binding]; other site 232721003307 malonyl-CoA synthase; Validated; Region: PRK07514 232721003308 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721003309 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 232721003310 Ligand Binding Site [chemical binding]; other site 232721003311 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 232721003312 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721003313 metal-binding site [ion binding] 232721003314 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721003315 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; cl11391 232721003316 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 232721003317 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the...; Region: cbb3_Oxidase_I; cd01661 232721003318 Low-spin heme binding site [chemical binding]; other site 232721003319 Putative water exit pathway; other site 232721003320 Binuclear center (active site) [active] 232721003321 Putative proton exit pathway; other site 232721003322 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 232721003323 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...; Region: cbb3_Oxidase_CcoQ; cl00282 232721003324 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 232721003325 Cytochrome c; Region: Cytochrom_C; cl11414 232721003326 Cytochrome c; Region: Cytochrom_C; cl11414 232721003327 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 232721003328 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 232721003329 FixH; Region: FixH; cl01254 232721003330 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 232721003331 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 232721003332 ligand binding site [chemical binding]; other site 232721003333 flexible hinge region; other site 232721003334 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 232721003335 putative switch regulator; other site 232721003336 non-specific DNA interactions [nucleotide binding]; other site 232721003337 DNA binding site [nucleotide binding] 232721003338 sequence specific DNA binding site [nucleotide binding]; other site 232721003339 putative cAMP binding site [chemical binding]; other site 232721003340 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 232721003341 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 232721003342 FeS/SAM binding site; other site 232721003343 HemN C-terminal region; Region: HemN_C; pfam06969 232721003344 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 232721003345 Cell division protein ZapA; Region: ZapA; cl01146 232721003346 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 232721003347 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 232721003348 N-terminal plug; other site 232721003349 ligand-binding site [chemical binding]; other site 232721003350 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 232721003351 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721003352 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 232721003353 catalytic triad [active] 232721003354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721003355 Walker A motif; other site 232721003356 ATP binding site [chemical binding]; other site 232721003357 Walker B motif; other site 232721003358 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...; Region: TroA-like; cl00262 232721003359 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 232721003360 intersubunit interface [polypeptide binding]; other site 232721003361 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...; Region: TM_ABC_iron-siderophores_like; cd06550 232721003362 dimer interface [polypeptide binding]; other site 232721003363 putative PBP binding regions; other site 232721003364 ABC-ATPase subunit interface; other site 232721003365 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 232721003366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721003367 Walker A/P-loop; other site 232721003368 ATP binding site [chemical binding]; other site 232721003369 Q-loop/lid; other site 232721003370 ABC transporter signature motif; other site 232721003371 Walker B; other site 232721003372 D-loop; other site 232721003373 H-loop/switch region; other site 232721003374 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 232721003375 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...; Region: CobA_CobO_BtuR; cd00561 232721003376 homodimer interface [polypeptide binding]; other site 232721003377 Walker A motif; other site 232721003378 ATP binding site [chemical binding]; other site 232721003379 hydroxycobalamin binding site [chemical binding]; other site 232721003380 Walker B motif; other site 232721003381 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 232721003382 Transposase, Mutator family; Region: Transposase_mut; pfam00872 232721003383 MULE transposase domain; Region: MULE; pfam10551 232721003384 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; cl11391 232721003385 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 232721003386 MFS transport protein AraJ; Provisional; Region: PRK10091 232721003387 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 232721003388 putative substrate translocation pore; other site 232721003389 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 232721003390 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721003391 malic enzyme; Reviewed; Region: PRK12862 232721003392 Malic enzyme, N-terminal domain; Region: malic; pfam00390 232721003393 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 232721003394 putative NAD(P) binding site [chemical binding]; other site 232721003395 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 232721003396 Permease family; Region: Xan_ur_permease; pfam00860 232721003397 Sulfate transporter family; Region: Sulfate_transp; cl00967 232721003398 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 232721003399 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 232721003400 putative metal binding site [ion binding]; other site 232721003401 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 232721003402 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 232721003403 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 232721003404 active site 232721003405 metal binding site [ion binding]; metal-binding site 232721003406 dimer interface [polypeptide binding]; other site 232721003407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 232721003408 Transposase; Region: DDE_Tnp_ISL3; pfam01610 232721003409 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 232721003410 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 232721003411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721003412 DNA-binding site [nucleotide binding]; DNA binding site 232721003413 FCD domain; Region: FCD; cl11656 232721003414 LysR family transcriptional regulator; Provisional; Region: PRK14997 232721003415 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721003416 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 232721003417 putative effector binding pocket; other site 232721003418 putative dimerization interface [polypeptide binding]; other site 232721003419 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 232721003420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721003421 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 232721003422 MOFRL family; Region: MOFRL; cl01013 232721003423 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU)...; Region: TLP_HIUase; cd05822 232721003424 active site 232721003425 homotetramer interface [polypeptide binding]; other site 232721003426 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 232721003427 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 232721003428 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 232721003429 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721003430 NAD(P) binding site [chemical binding]; other site 232721003431 catalytic residues [active] 232721003432 Transcriptional regulators [Transcription]; Region: GntR; COG1802 232721003433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721003434 FCD domain; Region: FCD; cl11656 232721003435 Predicted membrane protein [Function unknown]; Region: COG3748 232721003436 Protein of unknown function (DUF989); Region: DUF989; pfam06181 232721003437 Cytochrome c; Region: Cytochrom_C; cl11414 232721003438 guanine deaminase; Provisional; Region: PRK09228 232721003439 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...; Region: metallo-dependent_hydrolases; cl00281 232721003440 active site 232721003441 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 232721003442 trimer interface [polypeptide binding]; other site 232721003443 active site 232721003444 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 232721003445 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 232721003446 DEAD-like helicases superfamily; Region: DEXDc; smart00487 232721003447 ATP binding site [chemical binding]; other site 232721003448 Mg++ binding site [ion binding]; other site 232721003449 motif III; other site 232721003450 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 232721003451 nucleotide binding region [chemical binding]; other site 232721003452 ATP-binding site [chemical binding]; other site 232721003453 NosL; Region: NosL; cl01769 232721003454 NosL; Region: NosL; cl01769 232721003455 ABC-2 type transporter; Region: ABC2_membrane; cl11417 232721003456 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 232721003457 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 232721003458 Walker A/P-loop; other site 232721003459 ATP binding site [chemical binding]; other site 232721003460 Q-loop/lid; other site 232721003461 ABC transporter signature motif; other site 232721003462 Walker B; other site 232721003463 D-loop; other site 232721003464 H-loop/switch region; other site 232721003465 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 232721003466 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 232721003467 FMN-binding domain; Region: FMN_bind; cl01081 232721003468 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 232721003469 4Fe-4S binding domain; Region: Fer4_5; pfam12801 232721003470 nitrous-oxide reductase; Validated; Region: PRK02888 232721003471 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 232721003472 Cytochrome c; Region: Cytochrom_C; cl11414 232721003473 ApbE family; Region: ApbE; cl00643 232721003474 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 232721003475 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 232721003476 active site 232721003477 metal binding site [ion binding]; metal-binding site 232721003478 H-NS histone family; Region: Histone_HNS; pfam00816 232721003479 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 232721003480 aconitate hydratase; Validated; Region: PRK09277 232721003481 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 232721003482 substrate binding site [chemical binding]; other site 232721003483 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 232721003484 ligand binding site [chemical binding]; other site 232721003485 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 232721003486 substrate binding site [chemical binding]; other site 232721003487 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721003488 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 232721003489 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721003490 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 232721003491 putative substrate translocation pore; other site 232721003492 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 232721003493 active site 232721003494 phosphorylation site [posttranslational modification] 232721003495 intermolecular recognition site; other site 232721003496 dimerization interface [polypeptide binding]; other site 232721003497 LytTr DNA-binding domain; Region: LytTR; cl04498 232721003498 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 232721003499 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721003500 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721003501 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 232721003502 Histidine kinase; Region: His_kinase; pfam06580 232721003503 Bacitracin resistance protein BacA; Region: BacA; cl00858 232721003504 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 232721003505 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 232721003506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721003507 metal binding site [ion binding]; metal-binding site 232721003508 active site 232721003509 I-site; other site 232721003510 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 232721003511 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721003512 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 232721003513 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...; Region: proteasome_beta_bacterial; cd03765 232721003514 PhoD-like phosphatase; Region: PhoD; pfam09423 232721003515 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 232721003516 putative active site [active] 232721003517 putative metal binding site [ion binding]; other site 232721003518 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 232721003519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721003520 metal binding site [ion binding]; metal-binding site 232721003521 active site 232721003522 I-site; other site 232721003523 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 232721003524 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 232721003525 NAD(P) binding site [chemical binding]; other site 232721003526 Survival protein SurE; Region: SurE; cl00448 232721003527 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; cl12011 232721003528 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 232721003529 putative peptidoglycan binding site; other site 232721003530 Peptidase family M23; Region: Peptidase_M23; pfam01551 232721003531 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 232721003532 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 232721003533 RNA binding surface [nucleotide binding]; other site 232721003534 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 232721003535 active site 232721003536 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 232721003537 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 232721003538 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 232721003539 RNA binding surface [nucleotide binding]; other site 232721003540 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 232721003541 probable active site [active] 232721003542 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 232721003543 active site 232721003544 multimer interface [polypeptide binding]; other site 232721003545 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 232721003546 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; cl14056 232721003547 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 232721003548 binding surface 232721003549 TPR motif; other site 232721003550 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 232721003551 binding surface 232721003552 TPR motif; other site 232721003553 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 232721003554 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 232721003555 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 232721003556 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 232721003557 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 ATP-dependent...; Region: HisRS-like_core; cd00773 232721003558 dimer interface [polypeptide binding]; other site 232721003559 motif 1; other site 232721003560 active site 232721003561 motif 2; other site 232721003562 motif 3; other site 232721003563 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 232721003564 anticodon binding site; other site 232721003565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 232721003566 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 232721003567 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 232721003568 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 232721003569 active site 232721003570 GTP-binding protein Der; Reviewed; Region: PRK00093 232721003571 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 232721003572 G1 box; other site 232721003573 GTP/Mg2+ binding site [chemical binding]; other site 232721003574 Switch I region; other site 232721003575 G2 box; other site 232721003576 Switch II region; other site 232721003577 G3 box; other site 232721003578 G4 box; other site 232721003579 G5 box; other site 232721003580 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 232721003581 G1 box; other site 232721003582 GTP/Mg2+ binding site [chemical binding]; other site 232721003583 Switch I region; other site 232721003584 G2 box; other site 232721003585 G3 box; other site 232721003586 Switch II region; other site 232721003587 G4 box; other site 232721003588 G5 box; other site 232721003589 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 232721003590 Sm1 motif; other site 232721003591 intra - hexamer interaction site; other site 232721003592 inter - hexamer interaction site [polypeptide binding]; other site 232721003593 nucleotide binding pocket [chemical binding]; other site 232721003594 Sm2 motif; other site 232721003595 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 232721003596 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 232721003597 G1 box; other site 232721003598 GTP/Mg2+ binding site [chemical binding]; other site 232721003599 Switch I region; other site 232721003600 G2 box; other site 232721003601 G3 box; other site 232721003602 Switch II region; other site 232721003603 G4 box; other site 232721003604 G5 box; other site 232721003605 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 232721003606 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 232721003607 HflK protein; Region: hflK; TIGR01933 232721003608 FtsH protease regulator HflC; Provisional; Region: PRK11029 232721003609 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 232721003610 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 232721003611 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 232721003612 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 ATP-dependent...; Region: HisRS-like_core; cd00773 232721003613 dimer interface [polypeptide binding]; other site 232721003614 motif 1; other site 232721003615 active site 232721003616 motif 2; other site 232721003617 motif 3; other site 232721003618 adenylosuccinate synthetase; Provisional; Region: PRK01117 232721003619 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721003620 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721003621 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721003622 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 232721003623 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 232721003624 active site 232721003625 uracil binding [chemical binding]; other site 232721003626 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 232721003627 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 232721003628 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 232721003629 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 232721003630 putative MPT binding site; other site 232721003631 glutamine synthetase; Provisional; Region: glnA; PRK09469 232721003632 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 232721003633 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 232721003634 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 232721003635 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 trans-...; Region: HisKA; cd00082 232721003636 dimer interface [polypeptide binding]; other site 232721003637 phosphorylation site [posttranslational modification] 232721003638 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 232721003639 ATP binding site [chemical binding]; other site 232721003640 Mg2+ binding site [ion binding]; other site 232721003641 G-X-G motif; other site 232721003642 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 232721003643 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 232721003644 active site 232721003645 phosphorylation site [posttranslational modification] 232721003646 intermolecular recognition site; other site 232721003647 dimerization interface [polypeptide binding]; other site 232721003648 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...; Region: AAA; cd00009 232721003649 Walker A motif; other site 232721003650 ATP binding site [chemical binding]; other site 232721003651 Walker B motif; other site 232721003652 arginine finger; other site 232721003653 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 232721003654 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 232721003655 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 232721003656 putative phosphate binding site [ion binding]; other site 232721003657 putative catalytic site [active] 232721003658 active site 232721003659 metal binding site A [ion binding]; metal-binding site 232721003660 DNA binding site [nucleotide binding] 232721003661 putative AP binding site [nucleotide binding]; other site 232721003662 putative metal binding site B [ion binding]; other site 232721003663 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 5,10-...; Region: DHFR; cd00209 232721003664 folate binding site [chemical binding]; other site 232721003665 NADP+ binding site [chemical binding]; other site 232721003666 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 232721003667 putative homodimer interface [polypeptide binding]; other site 232721003668 putative active site [active] 232721003669 catalytic site [active] 232721003670 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 232721003671 dimerization interface [polypeptide binding]; other site 232721003672 active site 232721003673 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 232721003674 FAD binding domain; Region: FAD_binding_4; pfam01565 232721003675 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 232721003676 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 232721003677 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721003678 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 232721003679 catalytic residues [active] 232721003680 substrate binding pocket [chemical binding]; other site 232721003681 substrate-Mg2+ binding site; other site 232721003682 aspartate-rich region 1; other site 232721003683 aspartate-rich region 2; other site 232721003684 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 232721003685 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 232721003686 putative active site [active] 232721003687 putative metal binding site [ion binding]; other site 232721003688 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 232721003689 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 232721003690 glycosyltransferase, MGT family; Region: MGT; TIGR01426 232721003691 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 232721003692 active site lid residues [active] 232721003693 substrate binding pocket [chemical binding]; other site 232721003694 catalytic residues [active] 232721003695 substrate-Mg2+ binding site; other site 232721003696 aspartate-rich region 1; other site 232721003697 aspartate-rich region 2; other site 232721003698 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 232721003699 putative membrane fusion protein; Region: TIGR02828 232721003700 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 232721003701 trigger factor; Provisional; Region: tig; PRK01490 232721003702 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 232721003703 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 232721003704 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 232721003705 oligomer interface [polypeptide binding]; other site 232721003706 active site residues [active] 232721003707 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 232721003708 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 232721003709 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...; Region: AAA; cd00009 232721003710 Walker A motif; other site 232721003711 ATP binding site [chemical binding]; other site 232721003712 Walker B motif; other site 232721003713 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 232721003714 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 232721003715 Found in ATP-dependent protease La (LON); Region: LON; cl01056 232721003716 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...; Region: AAA; cd00009 232721003717 Walker A motif; other site 232721003718 ATP binding site [chemical binding]; other site 232721003719 Walker B motif; other site 232721003720 arginine finger; other site 232721003721 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 232721003722 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 232721003723 Phage integrase family; Region: Phage_integrase; pfam00589 232721003724 active site 232721003725 Int/Topo IB signature motif; other site 232721003726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721003727 Integrase core domain; Region: rve; cl01316 232721003728 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721003729 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...; Region: AAA; cd00009 232721003730 Walker A motif; other site 232721003731 ATP binding site [chemical binding]; other site 232721003732 Walker B motif; other site 232721003733 arginine finger; other site 232721003734 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721003735 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...; Region: AAA; cd00009 232721003736 Walker A motif; other site 232721003737 ATP binding site [chemical binding]; other site 232721003738 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 232721003739 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 232721003740 conserved cys residue [active] 232721003741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 232721003742 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 232721003743 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 232721003744 dimerization interface [polypeptide binding]; other site 232721003745 substrate binding pocket [chemical binding]; other site 232721003746 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 232721003747 Integrase core domain; Region: rve; cl01316 232721003748 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 232721003749 Bacterial TniB protein; Region: TniB; pfam05621 232721003750 TniQ; Region: TniQ; pfam06527 232721003751 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721003752 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721003753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 232721003754 Transposase; Region: DDE_Tnp_ISL3; pfam01610 232721003755 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 232721003756 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 232721003757 dimerization interface [polypeptide binding]; other site 232721003758 substrate binding pocket [chemical binding]; other site 232721003759 Transposase domain (DUF772); Region: DUF772; cl12084 232721003760 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721003761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721003762 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 232721003763 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 232721003764 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721003765 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721003766 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721003767 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 232721003768 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 232721003769 active site 232721003770 phosphorylation site [posttranslational modification] 232721003771 intermolecular recognition site; other site 232721003772 dimerization interface [polypeptide binding]; other site 232721003773 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...; Region: trans_reg_C; cd00383 232721003774 DNA binding site [nucleotide binding] 232721003775 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 232721003776 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 232721003777 DNA-binding interface [nucleotide binding]; DNA binding site 232721003778 Integrase core domain; Region: rve; cl01316 232721003779 putative transposase OrfB; Reviewed; Region: PHA02517 232721003780 Cytochrome c; Region: Cytochrom_C; cl11414 232721003781 Iron permease FTR1 family; Region: FTR1; cl00475 232721003782 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 232721003783 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 232721003784 DNA binding residues [nucleotide binding] 232721003785 dimer interface [polypeptide binding]; other site 232721003786 putative metal binding site [ion binding]; other site 232721003787 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; cl00207 232721003788 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721003789 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; cl00207 232721003790 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721003791 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; cl11391 232721003792 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 232721003793 active site 232721003794 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 232721003795 lipoprotein signal peptidase; Provisional; Region: PRK14787 232721003796 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721003797 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 232721003798 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 232721003799 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 232721003800 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 232721003801 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 232721003802 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 232721003803 TraU protein; Region: TraU; cl06067 232721003804 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 232721003805 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 232721003806 MPN+ (JAMM) motif; other site 232721003807 Zinc-binding site [ion binding]; other site 232721003808 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 232721003809 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 232721003810 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 232721003811 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 232721003812 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 232721003813 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 232721003814 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 232721003815 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 232721003816 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 232721003817 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 232721003818 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; cl09893 232721003819 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721003820 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 232721003821 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...; Region: AAA; cd00009 232721003822 Walker A motif; other site 232721003823 ATP binding site [chemical binding]; other site 232721003824 Walker B motif; other site 232721003825 arginine finger; other site 232721003826 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 232721003827 active site 232721003828 NTP binding site [chemical binding]; other site 232721003829 metal binding triad [ion binding]; metal-binding site 232721003830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721003831 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 232721003832 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721003833 ABC transporter signature motif; other site 232721003834 Walker B; other site 232721003835 D-loop; other site 232721003836 H-loop/switch region; other site 232721003837 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 232721003838 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 232721003839 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 232721003840 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 232721003841 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 232721003842 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 232721003843 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 232721003844 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 232721003845 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 232721003846 dimerization interface [polypeptide binding]; other site 232721003847 putative DNA binding site [nucleotide binding]; other site 232721003848 putative Zn2+ binding site [ion binding]; other site 232721003849 Low molecular weight phosphatase family; Region: LMWPc; cd00115 232721003850 Active site [active] 232721003851 Membrane transport protein; Region: Mem_trans; cl09117 232721003852 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 232721003853 catalytic residues [active] 232721003854 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 232721003855 DEAD-like helicases superfamily; Region: DEXDc; smart00487 232721003856 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 232721003857 nucleotide binding region [chemical binding]; other site 232721003858 ATP-binding site [chemical binding]; other site 232721003859 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 232721003860 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 232721003861 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 232721003862 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 232721003863 putative mercuric reductase; Provisional; Region: PRK13748 232721003864 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 232721003865 metal-binding site [ion binding] 232721003866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721003867 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 232721003868 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 232721003869 metal-binding site [ion binding] 232721003870 MerT mercuric transport protein; Region: MerT; cl03578 232721003871 putative transcriptional regulator MerR; Provisional; Region: PRK13752 232721003872 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 232721003873 DNA binding residues [nucleotide binding] 232721003874 dimer interface [polypeptide binding]; other site 232721003875 mercury binding site [ion binding]; other site 232721003876 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; cl12011 232721003877 cofactor binding site; other site 232721003878 DNA binding site [nucleotide binding] 232721003879 substrate interaction site [chemical binding]; other site 232721003880 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; cl12011 232721003881 DNA topoisomerase III; Provisional; Region: PRK07726 232721003882 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 232721003883 active site 232721003884 putative interdomain interaction site [polypeptide binding]; other site 232721003885 putative metal-binding site [ion binding]; other site 232721003886 putative nucleotide binding site [chemical binding]; other site 232721003887 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...; Region: TOP1Ac; cd00186 232721003888 domain I; other site 232721003889 DNA binding groove [nucleotide binding] 232721003890 phosphate binding site [ion binding]; other site 232721003891 domain II; other site 232721003892 domain III; other site 232721003893 nucleotide binding site [chemical binding]; other site 232721003894 catalytic site [active] 232721003895 domain IV; other site 232721003896 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 232721003897 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 232721003898 ssDNA binding site [nucleotide binding]; other site 232721003899 dimer interface [polypeptide binding]; other site 232721003900 tetramer (dimer of dimers) interface [polypeptide binding]; other site 232721003901 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 232721003902 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 232721003903 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 232721003904 ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 232721003905 ParB-like nuclease domain; Region: ParBc; cl02129 232721003906 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 232721003907 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...; Region: ParA; cd02042 232721003908 Magnesium ion binding site [ion binding]; other site 232721003909 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721003910 Domain of unknown function (DUF305); Region: DUF305; pfam03713 232721003911 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721003912 Uncharacterised protein family (UPF0156); Region: RHH_2; cl01448 232721003913 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 232721003914 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 232721003915 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 232721003916 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 232721003917 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 232721003918 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721003919 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 232721003920 metal-binding site [ion binding] 232721003921 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721003922 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; cl11391 232721003923 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 232721003924 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 232721003925 DNA binding residues [nucleotide binding] 232721003926 dimer interface [polypeptide binding]; other site 232721003927 putative metal binding site [ion binding]; other site 232721003928 Phage integrase protein; Region: DUF3701; pfam12482 232721003929 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 232721003930 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 232721003931 DNA binding site [nucleotide binding] 232721003932 Int/Topo IB signature motif; other site 232721003933 active site 232721003934 Sulfatase; Region: Sulfatase; cl10460 232721003935 integrase; Provisional; Region: PRK09692 232721003936 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 232721003937 active site 232721003938 Int/Topo IB signature motif; other site 232721003939 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721003940 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...; Region: AAA; cd00009 232721003941 Walker A motif; other site 232721003942 ATP binding site [chemical binding]; other site 232721003943 Walker B motif; other site 232721003944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721003945 Integrase core domain; Region: rve; cl01316 232721003946 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 232721003947 dimerization interface [polypeptide binding]; other site 232721003948 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 232721003949 Integrase core domain; Region: rve; cl01316 232721003950 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 232721003951 Bacterial TniB protein; Region: TniB; pfam05621 232721003952 TniQ; Region: TniQ; pfam06527 232721003953 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721003954 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 232721003955 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721003956 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 232721003957 dimerization interface [polypeptide binding]; other site 232721003958 substrate binding pocket [chemical binding]; other site 232721003959 DsrE/DsrF-like family; Region: DrsE; cl00672 232721003960 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 232721003961 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 232721003962 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 232721003963 Domain of unknown function DUF302; Region: DUF302; cl01364 232721003964 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 232721003965 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...; Region: DsbA_DsbC_DsbG; cd03020 232721003966 dimerization domain [polypeptide binding]; other site 232721003967 dimer interface [polypeptide binding]; other site 232721003968 catalytic residues [active] 232721003969 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 232721003970 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...; Region: TlpA_like_family; cd02966 232721003971 catalytic residues [active] 232721003972 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 232721003973 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 232721003974 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 232721003975 DsbD alpha interface [polypeptide binding]; other site 232721003976 catalytic residues [active] 232721003977 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 232721003978 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 232721003979 active site 232721003980 phosphorylation site [posttranslational modification] 232721003981 intermolecular recognition site; other site 232721003982 dimerization interface [polypeptide binding]; other site 232721003983 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...; Region: trans_reg_C; cd00383 232721003984 DNA binding site [nucleotide binding] 232721003985 sensor protein QseC; Provisional; Region: PRK10337 232721003986 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 trans-...; Region: HisKA; cd00082 232721003987 dimer interface [polypeptide binding]; other site 232721003988 phosphorylation site [posttranslational modification] 232721003989 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 232721003990 ATP binding site [chemical binding]; other site 232721003991 Mg2+ binding site [ion binding]; other site 232721003992 G-X-G motif; other site 232721003993 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 232721003994 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721003995 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 232721003996 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 232721003997 catalytic residues [active] 232721003998 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 232721003999 dimerization interface [polypeptide binding]; other site 232721004000 putative DNA binding site [nucleotide binding]; other site 232721004001 putative Zn2+ binding site [ion binding]; other site 232721004002 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 232721004003 active site residue [active] 232721004004 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 232721004005 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 232721004006 catalytic residues [active] 232721004007 hinge region; other site 232721004008 alpha helical domain; other site 232721004009 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721004010 DsrE/DsrF-like family; Region: DrsE; cl00672 232721004011 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 232721004012 gating phenylalanine in ion channel; other site 232721004013 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; cl00207 232721004014 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721004015 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 232721004016 Cation efflux family; Region: Cation_efflux; cl00316 232721004017 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 232721004018 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 232721004019 dimerization interface [polypeptide binding]; other site 232721004020 putative DNA binding site [nucleotide binding]; other site 232721004021 putative Zn2+ binding site [ion binding]; other site 232721004022 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 232721004023 metal-binding site [ion binding] 232721004024 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721004025 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 232721004026 metal-binding site [ion binding] 232721004027 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721004028 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; cl11391 232721004029 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 232721004030 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 232721004031 DNA binding residues [nucleotide binding] 232721004032 dimer interface [polypeptide binding]; other site 232721004033 copper binding site [ion binding]; other site 232721004034 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 232721004035 putative substrate translocation pore; other site 232721004036 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 232721004037 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 232721004038 putative NAD(P) binding site [chemical binding]; other site 232721004039 putative substrate binding site [chemical binding]; other site 232721004040 catalytic Zn binding site [ion binding]; other site 232721004041 structural Zn binding site [ion binding]; other site 232721004042 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 232721004043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721004044 homodimer interface [polypeptide binding]; other site 232721004045 catalytic residue [active] 232721004046 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 232721004047 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 232721004048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721004049 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721004050 Integrase core domain; Region: rve; cl01316 232721004051 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721004052 Integrase core domain; Region: rve; cl01316 232721004053 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 232721004054 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 232721004055 classical (c) SDRs; Region: SDR_c; cd05233 232721004056 NAD(P) binding site [chemical binding]; other site 232721004057 active site 232721004058 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 232721004059 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721004060 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 232721004061 dimerization interface [polypeptide binding]; other site 232721004062 substrate binding pocket [chemical binding]; other site 232721004063 DsrE/DsrF-like family; Region: DrsE; cl00672 232721004064 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721004065 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 232721004066 RES domain; Region: RES; cl02411 232721004067 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 232721004068 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 232721004069 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 232721004070 TraU protein; Region: TraU; cl06067 232721004071 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 232721004072 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 232721004073 MPN+ (JAMM) motif; other site 232721004074 Zinc-binding site [ion binding]; other site 232721004075 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 232721004076 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 232721004077 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 232721004078 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 232721004079 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 232721004080 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 232721004081 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 232721004082 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 232721004083 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 232721004084 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 232721004085 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; cl09893 232721004086 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 232721004087 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 232721004088 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 232721004089 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 232721004090 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 232721004091 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 232721004092 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 232721004093 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 232721004094 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 232721004095 Cytochrome c; Region: Cytochrom_C; cl11414 232721004096 Cytochrome c [Energy production and conversion]; Region: COG3258 232721004097 Cytochrome c; Region: Cytochrom_C; cl11414 232721004098 DEAD-like helicases superfamily; Region: DEXDc; smart00487 232721004099 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 232721004100 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 232721004101 nucleotide binding region [chemical binding]; other site 232721004102 ATP-binding site [chemical binding]; other site 232721004103 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 232721004104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 232721004105 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721004106 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721004107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 232721004108 Transposase; Region: DDE_Tnp_ISL3; pfam01610 232721004109 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 232721004110 Transposase domain (DUF772); Region: DUF772; cl12084 232721004111 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721004112 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 232721004113 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 232721004114 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 232721004115 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 232721004116 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; cl12011 232721004117 cofactor binding site; other site 232721004118 DNA binding site [nucleotide binding] 232721004119 substrate interaction site [chemical binding]; other site 232721004120 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; cl12011 232721004121 DNA topoisomerase III; Provisional; Region: PRK07726 232721004122 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 232721004123 active site 232721004124 putative interdomain interaction site [polypeptide binding]; other site 232721004125 putative metal-binding site [ion binding]; other site 232721004126 putative nucleotide binding site [chemical binding]; other site 232721004127 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...; Region: TOP1Ac; cd00186 232721004128 domain I; other site 232721004129 DNA binding groove [nucleotide binding] 232721004130 phosphate binding site [ion binding]; other site 232721004131 domain II; other site 232721004132 domain III; other site 232721004133 nucleotide binding site [chemical binding]; other site 232721004134 catalytic site [active] 232721004135 domain IV; other site 232721004136 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 232721004137 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 232721004138 ssDNA binding site [nucleotide binding]; other site 232721004139 dimer interface [polypeptide binding]; other site 232721004140 tetramer (dimer of dimers) interface [polypeptide binding]; other site 232721004141 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 232721004142 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 232721004143 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 232721004144 ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 232721004145 ParB-like nuclease domain; Region: ParBc; cl02129 232721004146 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 232721004147 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...; Region: ParA; cd02042 232721004148 Magnesium ion binding site [ion binding]; other site 232721004149 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721004150 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 232721004151 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 232721004152 Transposase domain (DUF772); Region: DUF772; cl12084 232721004153 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721004154 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 232721004155 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721004156 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 trans-...; Region: HisKA; cd00082 232721004157 dimer interface [polypeptide binding]; other site 232721004158 phosphorylation site [posttranslational modification] 232721004159 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 232721004160 ATP binding site [chemical binding]; other site 232721004161 Mg2+ binding site [ion binding]; other site 232721004162 G-X-G motif; other site 232721004163 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 232721004164 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 232721004165 active site 232721004166 phosphorylation site [posttranslational modification] 232721004167 intermolecular recognition site; other site 232721004168 dimerization interface [polypeptide binding]; other site 232721004169 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...; Region: trans_reg_C; cd00383 232721004170 DNA binding site [nucleotide binding] 232721004171 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 232721004172 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 232721004173 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 232721004174 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 232721004175 metal-binding site [ion binding] 232721004176 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 232721004177 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 232721004178 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721004179 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721004180 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; cl11391 232721004181 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 232721004182 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 232721004183 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 232721004184 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 232721004185 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 232721004186 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 232721004187 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 232721004188 putative transcriptional regulator MerR; Provisional; Region: PRK13752 232721004189 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 232721004190 DNA binding residues [nucleotide binding] 232721004191 dimer interface [polypeptide binding]; other site 232721004192 mercury binding site [ion binding]; other site 232721004193 MerT mercuric transport protein; Region: MerT; cl03578 232721004194 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 232721004195 metal-binding site [ion binding] 232721004196 Predicted membrane protein [Function unknown]; Region: COG3174 232721004197 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 232721004198 Outer membrane efflux protein; Region: OEP; pfam02321 232721004199 Outer membrane efflux protein; Region: OEP; pfam02321 232721004200 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 232721004201 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 232721004202 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 232721004203 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 232721004204 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 232721004205 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 232721004206 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 232721004207 metal-binding site [ion binding] 232721004208 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 232721004209 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 232721004210 S-adenosylmethionine binding site [chemical binding]; other site 232721004211 FtsH Extracellular; Region: FtsH_ext; pfam06480 232721004212 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 232721004213 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...; Region: AAA; cd00009 232721004214 Walker A motif; other site 232721004215 ATP binding site [chemical binding]; other site 232721004216 Walker B motif; other site 232721004217 arginine finger; other site 232721004218 Peptidase family M41; Region: Peptidase_M41; pfam01434 232721004219 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 232721004220 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...; Region: TPP_enzymes; cl01629 232721004221 TPP-binding site [chemical binding]; other site 232721004222 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 232721004223 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 232721004224 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 232721004225 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 232721004226 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 232721004227 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 232721004228 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721004229 thymidine phosphorylase; Provisional; Region: PRK04350 232721004230 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 232721004231 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 232721004232 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 232721004233 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 232721004234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721004235 Beta-Casp domain; Region: Beta-Casp; pfam10996 232721004236 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 232721004237 Domain of unknown function (DUF477); Region: DUF477; cl01535 232721004238 Domain of unknown function (DUF477); Region: DUF477; cl01535 232721004239 LemA family; Region: LemA; cl00742 232721004240 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; cl00207 232721004241 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721004242 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721004243 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; cl11391 232721004244 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 232721004245 Transposase domain (DUF772); Region: DUF772; cl12084 232721004246 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721004247 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 232721004248 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 232721004249 N-terminal plug; other site 232721004250 ligand-binding site [chemical binding]; other site 232721004251 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 232721004252 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 232721004253 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 232721004254 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 232721004255 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 232721004256 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14877 232721004257 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 232721004258 TraU protein; Region: TraU; cl06067 232721004259 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 232721004260 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 232721004261 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cl10465 232721004262 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 232721004263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721004264 Walker A motif; other site 232721004265 ATP binding site [chemical binding]; other site 232721004266 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 232721004267 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...; Region: DsbA_DsbC_DsbG; cd03020 232721004268 dimerization domain [polypeptide binding]; other site 232721004269 dimer interface [polypeptide binding]; other site 232721004270 catalytic residues [active] 232721004271 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 232721004272 TraK protein; Region: TraK; pfam06586 232721004273 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 232721004274 TraE protein; Region: TraE; cl05060 232721004275 TraL protein; Region: TraL; cl06278 232721004276 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 catalyze...; Region: LT_GEWL; cd00254 232721004277 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721004278 catalytic residue [active] 232721004279 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721004280 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 232721004281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721004282 Walker A motif; other site 232721004283 ATP binding site [chemical binding]; other site 232721004284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721004285 Walker B motif; other site 232721004286 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721004287 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 232721004288 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 (...; Region: S24_LexA-like; cd06529 232721004289 Catalytic site [active] 232721004290 Domain of unknown function (DUF932); Region: DUF932; cl12129 232721004291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 232721004292 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl07038 232721004293 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...; Region: TOPRIM_primases; cd01029 232721004294 active site 232721004295 metal binding site [ion binding]; metal-binding site 232721004296 interdomain interaction site; other site 232721004297 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721004298 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 232721004299 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 232721004300 Int/Topo IB signature motif; other site 232721004301 active site 232721004302 catalytic residues [active] 232721004303 DNA binding site [nucleotide binding] 232721004304 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 232721004305 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 232721004306 active site 232721004307 metal binding site [ion binding]; metal-binding site 232721004308 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 232721004309 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721004310 Walker A motif; other site 232721004311 ATP binding site [chemical binding]; other site 232721004312 Walker B motif; other site 232721004313 arginine finger; other site 232721004314 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 232721004315 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 232721004316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721004317 Walker A/P-loop; other site 232721004318 ATP binding site [chemical binding]; other site 232721004319 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 232721004320 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721004321 ABC transporter signature motif; other site 232721004322 Walker B; other site 232721004323 D-loop; other site 232721004324 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; cl12011 232721004325 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; cl12011 232721004326 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; cl14882 232721004327 DEAD-like helicases superfamily; Region: DEXDc; smart00487 232721004328 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; cl14882 232721004329 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; cl14882 232721004330 RES domain; Region: RES; cl02411 232721004331 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 232721004332 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721004333 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cl00257 232721004334 ParB-like nuclease domain; Region: ParBc; cl02129 232721004335 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 232721004336 PRTRC system protein E; Region: PRTRC_E; TIGR03741 232721004337 PRTRC system protein C; Region: PRTRC_C; TIGR03738 232721004338 PRTRC system protein F; Region: PRTRC_F; TIGR03742 232721004339 PRTRC system protein B; Region: PRTRC_B; TIGR03737 232721004340 Domain of unknown function (DUF2016); Region: DUF2016; cl09677 232721004341 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 232721004342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721004343 ATP binding site [chemical binding]; other site 232721004344 H-NS histone family; Region: Histone_HNS; pfam00816 232721004345 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 232721004346 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 232721004347 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 232721004348 PRTRC system protein D; Region: PRTRC_D; TIGR03739 232721004349 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 232721004350 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 232721004351 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 232721004352 active site 232721004353 Int/Topo IB signature motif; other site 232721004354 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 232721004355 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 232721004356 NAD binding site [chemical binding]; other site 232721004357 homotetramer interface [polypeptide binding]; other site 232721004358 homodimer interface [polypeptide binding]; other site 232721004359 active site 232721004360 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 232721004361 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 232721004362 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721004363 active site 232721004364 HIGH motif; other site 232721004365 nucleotide binding site [chemical binding]; other site 232721004366 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721004367 active site 232721004368 KMSKS motif; other site 232721004369 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 232721004370 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 232721004371 trimer interface [polypeptide binding]; other site 232721004372 active site 232721004373 dimer interface [polypeptide binding]; other site 232721004374 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 232721004375 RF-1 domain; Region: RF-1; cl02875 232721004376 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 232721004377 putative active site [active] 232721004378 metal binding site [ion binding]; metal-binding site 232721004379 Predicted esterase [General function prediction only]; Region: COG0400 232721004380 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721004381 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 232721004382 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721004383 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721004384 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 232721004385 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 232721004386 dimer interface [polypeptide binding]; other site 232721004387 TPP-binding site [chemical binding]; other site 232721004388 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 232721004389 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 232721004390 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 232721004391 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 232721004392 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 232721004393 putative active site [active] 232721004394 putative metal binding site [ion binding]; other site 232721004395 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 232721004396 substrate binding site [chemical binding]; other site 232721004397 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 232721004398 substrate binding site [chemical binding]; other site 232721004399 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 232721004400 TPR motif; other site 232721004401 binding surface 232721004402 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 232721004403 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 232721004404 active site 232721004405 HIGH motif; other site 232721004406 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 232721004407 KMSKS motif; other site 232721004408 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 232721004409 tRNA binding surface [nucleotide binding]; other site 232721004410 anticodon binding site; other site 232721004411 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 232721004412 endonuclease III; Region: ENDO3c; smart00478 232721004413 minor groove reading motif; other site 232721004414 helix-hairpin-helix signature motif; other site 232721004415 substrate binding pocket [chemical binding]; other site 232721004416 active site 232721004417 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 232721004418 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 232721004419 Ligand Binding Site [chemical binding]; other site 232721004420 TilS substrate binding domain; Region: TilS; pfam09179 232721004421 aspartate kinase; Reviewed; Region: PRK06635 232721004422 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 232721004423 putative nucleotide binding site [chemical binding]; other site 232721004424 putative catalytic residues [active] 232721004425 putative Mg ion binding site [ion binding]; other site 232721004426 putative aspartate binding site [chemical binding]; other site 232721004427 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 232721004428 putative allosteric regulatory site; other site 232721004429 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 232721004430 putative allosteric regulatory residue; other site 232721004431 Copper resistance protein D; Region: CopD; cl00563 232721004432 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 232721004433 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 232721004434 THF binding site; other site 232721004435 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 232721004436 substrate binding site [chemical binding]; other site 232721004437 THF binding site; other site 232721004438 zinc-binding site [ion binding]; other site 232721004439 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 232721004440 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721004441 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 232721004442 putative dimerization interface [polypeptide binding]; other site 232721004443 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 232721004444 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 232721004445 tetramer interface [polypeptide binding]; other site 232721004446 active site 232721004447 Mg2+/Mn2+ binding site [ion binding]; other site 232721004448 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 232721004449 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 232721004450 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 232721004451 substrate binding site [chemical binding]; other site 232721004452 ligand binding site [chemical binding]; other site 232721004453 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 232721004454 substrate binding site [chemical binding]; other site 232721004455 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 232721004456 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A (...; Region: CS_ACL-C_CCL; cl00416 232721004457 oxalacetate binding site [chemical binding]; other site 232721004458 citrylCoA binding site [chemical binding]; other site 232721004459 coenzyme A binding site [chemical binding]; other site 232721004460 catalytic triad [active] 232721004461 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...; Region: BFIT_BACH; cd03442 232721004462 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 232721004463 sequence-specific DNA binding site [nucleotide binding]; other site 232721004464 salt bridge; other site 232721004465 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 232721004466 Domain of unknown function (DUF955); Region: DUF955; cl01076 232721004467 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 232721004468 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 232721004469 RNA binding surface [nucleotide binding]; other site 232721004470 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 232721004471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 232721004472 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 trans-...; Region: HisKA; cd00082 232721004473 dimer interface [polypeptide binding]; other site 232721004474 phosphorylation site [posttranslational modification] 232721004475 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 232721004476 ATP binding site [chemical binding]; other site 232721004477 Mg2+ binding site [ion binding]; other site 232721004478 G-X-G motif; other site 232721004479 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 232721004480 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 232721004481 active site 232721004482 phosphorylation site [posttranslational modification] 232721004483 intermolecular recognition site; other site 232721004484 dimerization interface [polypeptide binding]; other site 232721004485 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...; Region: trans_reg_C; cd00383 232721004486 DNA binding site [nucleotide binding] 232721004487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721004488 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 232721004489 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 232721004490 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 232721004491 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 232721004492 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721004493 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 232721004494 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 232721004495 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 232721004496 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 232721004497 active site residue [active] 232721004498 putative inner membrane protein; Provisional; Region: PRK11099 232721004499 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 232721004500 active site residue [active] 232721004501 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 232721004502 active site residue [active] 232721004503 ferrochelatase; Reviewed; Region: hemH; PRK00035 232721004504 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 232721004505 C-terminal domain interface [polypeptide binding]; other site 232721004506 active site 232721004507 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 232721004508 active site 232721004509 N-terminal domain interface [polypeptide binding]; other site 232721004510 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 232721004511 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 232721004512 motif II; other site 232721004513 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 232721004514 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 232721004515 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721004516 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; cl11391 232721004517 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 232721004518 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 becoming...; Region: Lipase; cl14883 232721004519 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 232721004520 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721004521 nucleophilic elbow; other site 232721004522 catalytic triad; other site 232721004523 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 232721004524 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 232721004525 homodimer interface [polypeptide binding]; other site 232721004526 substrate-cofactor binding pocket; other site 232721004527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721004528 catalytic residue [active] 232721004529 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-...; Region: CBS_pair; cl10010 232721004530 FOG: CBS domain [General function prediction only]; Region: COG0517 232721004531 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 232721004532 Tetramer interface [polypeptide binding]; other site 232721004533 Active site [active] 232721004534 FMN-binding site [chemical binding]; other site 232721004535 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 232721004536 ATP cone domain; Region: ATP-cone; pfam03477 232721004537 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...; Region: SHMT; cd00378 232721004538 dimer interface [polypeptide binding]; other site 232721004539 glycine-pyridoxal phosphate binding site [chemical binding]; other site 232721004540 active site 232721004541 folate binding site [chemical binding]; other site 232721004542 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 232721004543 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 catalyze...; Region: LT_GEWL; cd00254 232721004544 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721004545 catalytic residue [active] 232721004546 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 232721004547 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 232721004548 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 232721004549 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 232721004550 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 232721004551 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 232721004552 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 232721004553 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721004554 Rrf2 family protein; Region: rrf2_super; TIGR00738 232721004555 N-formylglutamate amidohydrolase; Region: FGase; cl01522 232721004556 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 232721004557 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 232721004558 HPP family; Region: HPP; pfam04982 232721004559 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-...; Region: CBS_pair; cl10010 232721004560 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 232721004561 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 232721004562 rRNA binding site [nucleotide binding]; other site 232721004563 predicted 30S ribosome binding site; other site 232721004564 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 232721004565 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 232721004566 PPIC-type PPIASE domain; Region: Rotamase; cl08278 232721004567 BolA-like protein; Region: BolA; cl00386 232721004568 Intracellular septation protein A; Region: IspA; cl01098 232721004569 SelR domain; Region: SelR; cl00369 232721004570 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 232721004571 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 232721004572 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721004573 putative acyl-CoA synthetase; Provisional; Region: PRK06018 232721004574 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721004575 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 232721004576 putative ligand binding site [chemical binding]; other site 232721004577 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 232721004578 TM-ABC transporter signature motif; other site 232721004579 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 232721004580 TM-ABC transporter signature motif; other site 232721004581 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 232721004582 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 232721004583 Walker A/P-loop; other site 232721004584 ATP binding site [chemical binding]; other site 232721004585 Q-loop/lid; other site 232721004586 ABC transporter signature motif; other site 232721004587 Walker B; other site 232721004588 D-loop; other site 232721004589 H-loop/switch region; other site 232721004590 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 232721004591 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 232721004592 Walker A/P-loop; other site 232721004593 ATP binding site [chemical binding]; other site 232721004594 Q-loop/lid; other site 232721004595 ABC transporter signature motif; other site 232721004596 Walker B; other site 232721004597 D-loop; other site 232721004598 H-loop/switch region; other site 232721004599 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 232721004600 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 232721004601 substrate binding site [chemical binding]; other site 232721004602 oxyanion hole (OAH) forming residues; other site 232721004603 trimer interface [polypeptide binding]; other site 232721004604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721004605 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721004606 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721004607 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 232721004608 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 232721004609 dimer interface [polypeptide binding]; other site 232721004610 active site 232721004611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721004612 metal binding site [ion binding]; metal-binding site 232721004613 active site 232721004614 I-site; other site 232721004615 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 232721004616 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721004617 active site 232721004618 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 232721004619 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 232721004620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 232721004621 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 232721004622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 232721004623 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 232721004624 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 232721004625 Walker A/P-loop; other site 232721004626 ATP binding site [chemical binding]; other site 232721004627 Q-loop/lid; other site 232721004628 ABC transporter signature motif; other site 232721004629 Walker B; other site 232721004630 D-loop; other site 232721004631 H-loop/switch region; other site 232721004632 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 232721004633 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 232721004634 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 232721004635 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721004636 putative substrate translocation pore; other site 232721004637 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721004638 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 232721004639 putative ligand binding site [chemical binding]; other site 232721004640 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 232721004641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721004642 NAD(P) binding site [chemical binding]; other site 232721004643 active site 232721004644 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 232721004645 CoenzymeA binding site [chemical binding]; other site 232721004646 subunit interaction site [polypeptide binding]; other site 232721004647 PHB binding site; other site 232721004648 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 232721004649 Prostaglandin dehydrogenases; Region: PGDH; cd05288 232721004650 NAD(P) binding site [chemical binding]; other site 232721004651 substrate binding site [chemical binding]; other site 232721004652 dimer interface [polypeptide binding]; other site 232721004653 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 232721004654 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 232721004655 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 232721004656 C-terminal domain interface [polypeptide binding]; other site 232721004657 GSH binding site (G-site) [chemical binding]; other site 232721004658 dimer interface [polypeptide binding]; other site 232721004659 Glutathione S-transferase (GST) family, C-terminal alpha helical 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...; Region: GST_C_family; cd00299 232721004660 dimer interface [polypeptide binding]; other site 232721004661 substrate binding pocket (H-site) [chemical binding]; other site 232721004662 N-terminal domain interface [polypeptide binding]; other site 232721004663 hypothetical protein; Provisional; Region: PRK06194 232721004664 classical (c) SDRs; Region: SDR_c; cd05233 232721004665 NAD(P) binding site [chemical binding]; other site 232721004666 active site 232721004667 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 232721004668 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 232721004669 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 232721004670 putative substrate translocation pore; other site 232721004671 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 232721004672 putative substrate translocation pore; other site 232721004673 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 232721004674 Protein of unknown function DUF72; Region: DUF72; cl00777 232721004675 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 232721004676 putative metal binding site [ion binding]; other site 232721004677 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 232721004678 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 232721004679 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 232721004680 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...; Region: S1_Tex; cd05685 232721004681 RNA binding site [nucleotide binding]; other site 232721004682 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721004683 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 232721004684 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721004685 hypothetical protein; Provisional; Region: PRK13560 232721004686 sensory histidine kinase AtoS; Provisional; Region: PRK11360 232721004687 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 232721004688 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 232721004689 putative active site [active] 232721004690 metal binding site [ion binding]; metal-binding site 232721004691 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 232721004692 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721004693 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 232721004694 substrate binding pocket [chemical binding]; other site 232721004695 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...; Region: 4HBT; cd00586 232721004696 active site 232721004697 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 232721004698 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 232721004699 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 232721004700 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 232721004701 YceG-like family; Region: YceG; pfam02618 232721004702 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 232721004703 dimerization interface [polypeptide binding]; other site 232721004704 thymidylate kinase; Validated; Region: tmk; PRK00698 232721004705 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...; Region: TMPK; cd01672 232721004706 TMP-binding site; other site 232721004707 ATP-binding site [chemical binding]; other site 232721004708 DNA polymerase III subunit delta'; Validated; Region: PRK06964 232721004709 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721004710 PilZ domain; Region: PilZ; cl01260 232721004711 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 232721004712 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 232721004713 active site 232721004714 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 232721004715 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 232721004716 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 232721004717 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 232721004718 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 232721004719 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 232721004720 Walker A/P-loop; other site 232721004721 ATP binding site [chemical binding]; other site 232721004722 Q-loop/lid; other site 232721004723 ABC transporter signature motif; other site 232721004724 Walker B; other site 232721004725 D-loop; other site 232721004726 H-loop/switch region; other site 232721004727 translocation protein TolB; Provisional; Region: tolB; PRK02889 232721004728 TolB amino-terminal domain; Region: TolB_N; pfam04052 232721004729 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 232721004730 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 232721004731 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 232721004732 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 232721004733 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 232721004734 ligand binding site [chemical binding]; other site 232721004735 tol-pal system protein YbgF; Provisional; Region: PRK10803 232721004736 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 232721004737 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 232721004738 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-...; Region: YgdL_like; cd00755 232721004739 putative ATP binding site [chemical binding]; other site 232721004740 putative substrate interface [chemical binding]; other site 232721004741 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721004742 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...; Region: AAA; cd00009 232721004743 Walker A motif; other site 232721004744 ATP binding site [chemical binding]; other site 232721004745 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721004746 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721004747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721004748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 232721004749 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721004750 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721004751 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 232721004752 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 catalyze...; Region: LT_GEWL; cd00254 232721004753 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721004754 catalytic residue [active] 232721004755 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 232721004756 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721004757 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; cl12011 232721004758 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 232721004759 RNA/DNA hybrid binding site [nucleotide binding]; other site 232721004760 active site 232721004761 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 232721004762 catalytic residues [active] 232721004763 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 232721004764 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 232721004765 dimer interface [polypeptide binding]; other site 232721004766 putative functional site; other site 232721004767 putative MPT binding site; other site 232721004768 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 232721004769 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 232721004770 GTP binding site [chemical binding]; other site 232721004771 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 232721004772 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 232721004773 FeS/SAM binding site; other site 232721004774 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 232721004775 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721004776 Integrase core domain; Region: rve; cl01316 232721004777 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721004778 Integrase core domain; Region: rve; cl01316 232721004779 Transposase domain (DUF772); Region: DUF772; cl12084 232721004780 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721004781 Integrase core domain; Region: rve; cl01316 232721004782 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 232721004783 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721004784 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 232721004785 NAD(P) binding site [chemical binding]; other site 232721004786 catalytic residues [active] 232721004787 catalytic residues [active] 232721004788 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 232721004789 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 232721004790 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 232721004791 dimer interface [polypeptide binding]; other site 232721004792 substrate binding site [chemical binding]; other site 232721004793 metal binding sites [ion binding]; metal-binding site 232721004794 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 232721004795 FemAB family; Region: FemAB; cl11444 232721004796 Protein of unknown function, DUF482; Region: DUF482; pfam04339 232721004797 NAD synthetase; Provisional; Region: PRK13981 232721004798 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 232721004799 multimer interface [polypeptide binding]; other site 232721004800 active site 232721004801 catalytic triad [active] 232721004802 protein interface 1 [polypeptide binding]; other site 232721004803 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...; Region: NAD_synthase; cd00553 232721004804 homodimer interface [polypeptide binding]; other site 232721004805 NAD binding pocket [chemical binding]; other site 232721004806 ATP binding pocket [chemical binding]; other site 232721004807 Mg binding site [ion binding]; other site 232721004808 active-site loop [active] 232721004809 Nitrogen regulatory protein P-II; Region: P-II; cl00412 232721004810 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 232721004811 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 232721004812 RDD family; Region: RDD; cl00746 232721004813 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 232721004814 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 232721004815 RNA polymerase factor sigma-70; Validated; Region: PRK09047 232721004816 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...; Region: Sigma70_r4; cd06171 232721004817 DNA binding residues [nucleotide binding] 232721004818 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 232721004819 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 232721004820 PYR/PP interface [polypeptide binding]; other site 232721004821 dimer interface [polypeptide binding]; other site 232721004822 TPP binding site [chemical binding]; other site 232721004823 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 232721004824 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 232721004825 TPP-binding site [chemical binding]; other site 232721004826 dimer interface [polypeptide binding]; other site 232721004827 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 232721004828 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 232721004829 putative valine binding site [chemical binding]; other site 232721004830 dimer interface [polypeptide binding]; other site 232721004831 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 232721004832 ketol-acid reductoisomerase; Provisional; Region: PRK05479 232721004833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721004834 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 232721004835 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 232721004836 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 232721004837 2-isopropylmalate synthase; Validated; Region: PRK03739 232721004838 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 232721004839 active site 232721004840 catalytic residues [active] 232721004841 metal binding site [ion binding]; metal-binding site 232721004842 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 232721004843 2-isopropylmalate synthase; Validated; Region: PRK00915 232721004844 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 232721004845 active site 232721004846 catalytic residues [active] 232721004847 metal binding site [ion binding]; metal-binding site 232721004848 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 232721004849 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 232721004850 Beta-lactamase; Region: Beta-lactamase; cl01009 232721004851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721004852 Transcriptional regulator [Transcription]; Region: IclR; COG1414 232721004853 Bacterial transcriptional regulator; Region: IclR; pfam01614 232721004854 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721004855 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 232721004856 FAD binding site [chemical binding]; other site 232721004857 substrate binding site [chemical binding]; other site 232721004858 catalytic base [active] 232721004859 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 232721004860 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 232721004861 putative active site [active] 232721004862 putative substrate binding site [chemical binding]; other site 232721004863 ATP binding site [chemical binding]; other site 232721004864 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 232721004865 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 232721004866 ligand binding site [chemical binding]; other site 232721004867 flexible hinge region; other site 232721004868 enoyl-CoA hydratase; Provisional; Region: PRK07511 232721004869 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 232721004870 substrate binding site [chemical binding]; other site 232721004871 oxyanion hole (OAH) forming residues; other site 232721004872 trimer interface [polypeptide binding]; other site 232721004873 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 232721004874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721004875 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721004876 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721004877 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- (beta-...; Region: TMP_TenI; cd00564 232721004878 thiamine phosphate binding site [chemical binding]; other site 232721004879 active site 232721004880 pyrophosphate binding site [ion binding]; other site 232721004881 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 232721004882 ThiS interaction site; other site 232721004883 putative active site [active] 232721004884 tetramer interface [polypeptide binding]; other site 232721004885 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 232721004886 thiS-thiF/thiG interaction site; other site 232721004887 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721004888 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 232721004889 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 232721004890 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 232721004891 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 232721004892 dimer interface [polypeptide binding]; other site 232721004893 substrate binding site [chemical binding]; other site 232721004894 ATP binding site [chemical binding]; other site 232721004895 Bacterial SH3 domain; Region: SH3_3; cl02551 232721004896 Bacterial SH3 domain; Region: SH3_3; cl02551 232721004897 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 232721004898 Ferredoxin [Energy production and conversion]; Region: COG1146 232721004899 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 232721004900 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 232721004901 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 232721004902 CysD dimerization site [polypeptide binding]; other site 232721004903 G1 box; other site 232721004904 putative GEF interaction site [polypeptide binding]; other site 232721004905 GTP/Mg2+ binding site [chemical binding]; other site 232721004906 Switch I region; other site 232721004907 G2 box; other site 232721004908 G3 box; other site 232721004909 Switch II region; other site 232721004910 G4 box; other site 232721004911 G5 box; other site 232721004912 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NodQ_II; cd03695 232721004913 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-...; Region: Translation_factor_III; cl02786 232721004914 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 232721004915 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 232721004916 Active Sites [active] 232721004917 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 232721004918 Active Sites [active] 232721004919 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 232721004920 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 232721004921 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 232721004922 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 232721004923 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; cl12011 232721004924 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 232721004925 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 232721004926 Predicted membrane protein [Function unknown]; Region: COG2860 232721004927 UPF0126 domain; Region: UPF0126; pfam03458 232721004928 UPF0126 domain; Region: UPF0126; pfam03458 232721004929 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 232721004930 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 232721004931 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 232721004932 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins...; Region: GST_N_GTT1_like; cd03046 232721004933 putative C-terminal domain interface [polypeptide binding]; other site 232721004934 putative GSH binding site (G-site) [chemical binding]; other site 232721004935 putative dimer interface [polypeptide binding]; other site 232721004936 GST_C family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins...; Region: GST_C_GTT1_like; cd03189 232721004937 putative N-terminal domain interface [polypeptide binding]; other site 232721004938 putative dimer interface [polypeptide binding]; other site 232721004939 putative substrate binding pocket (H-site) [chemical binding]; other site 232721004940 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 232721004941 DNA photolyase; Region: DNA_photolyase; pfam00875 232721004942 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 232721004943 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 232721004944 Int/Topo IB signature motif; other site 232721004945 multiple promoter invertase; Provisional; Region: mpi; PRK13413 232721004946 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 232721004947 catalytic residues [active] 232721004948 catalytic nucleophile [active] 232721004949 Presynaptic Site I dimer interface [polypeptide binding]; other site 232721004950 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 232721004951 Synaptic Flat tetramer interface [polypeptide binding]; other site 232721004952 Synaptic Site I dimer interface [polypeptide binding]; other site 232721004953 DNA binding site [nucleotide binding] 232721004954 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 232721004955 DNA-binding interface [nucleotide binding]; DNA binding site 232721004956 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 232721004957 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 232721004958 NAD binding site [chemical binding]; other site 232721004959 homotetramer interface [polypeptide binding]; other site 232721004960 homodimer interface [polypeptide binding]; other site 232721004961 substrate binding site [chemical binding]; other site 232721004962 active site 232721004963 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 232721004964 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 232721004965 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 232721004966 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721004967 dimer interface [polypeptide binding]; other site 232721004968 conserved gate region; other site 232721004969 putative PBP binding loops; other site 232721004970 ABC-ATPase subunit interface; other site 232721004971 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 232721004972 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721004973 dimer interface [polypeptide binding]; other site 232721004974 conserved gate region; other site 232721004975 putative PBP binding loops; other site 232721004976 ABC-ATPase subunit interface; other site 232721004977 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 232721004978 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 232721004979 Walker A/P-loop; other site 232721004980 ATP binding site [chemical binding]; other site 232721004981 Q-loop/lid; other site 232721004982 ABC transporter signature motif; other site 232721004983 Walker B; other site 232721004984 D-loop; other site 232721004985 H-loop/switch region; other site 232721004986 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 232721004987 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 232721004988 Walker A/P-loop; other site 232721004989 ATP binding site [chemical binding]; other site 232721004990 Q-loop/lid; other site 232721004991 ABC transporter signature motif; other site 232721004992 Walker B; other site 232721004993 D-loop; other site 232721004994 H-loop/switch region; other site 232721004995 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 232721004996 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 232721004997 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 232721004998 Ligand Binding Site [chemical binding]; other site 232721004999 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 232721005000 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005001 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 232721005002 putative dimerization interface [polypeptide binding]; other site 232721005003 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 232721005004 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 232721005005 Domain of unknown function DUF20; Region: UPF0118; cl00465 232721005006 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 232721005007 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 232721005008 TPP-binding site [chemical binding]; other site 232721005009 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 232721005010 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 232721005011 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 232721005012 E3 interaction surface; other site 232721005013 lipoyl attachment site [posttranslational modification]; other site 232721005014 e3 binding domain; Region: E3_binding; pfam02817 232721005015 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 232721005016 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 232721005017 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721005018 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 232721005019 Predicted ATPase [General function prediction only]; Region: COG1485 232721005020 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 232721005021 Active site [active] 232721005022 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 232721005023 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; cl14882 232721005024 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 232721005025 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 232721005026 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 232721005027 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 232721005028 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 232721005029 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 232721005030 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...; Region: DnaE_OBF; cd04485 232721005031 generic binding surface II; other site 232721005032 generic binding surface I; other site 232721005033 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 232721005034 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 232721005035 Clp amino terminal domain; Region: Clp_N; pfam02861 232721005036 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...; Region: AAA; cd00009 232721005037 Walker A motif; other site 232721005038 ATP binding site [chemical binding]; other site 232721005039 Walker B motif; other site 232721005040 arginine finger; other site 232721005041 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...; Region: AAA; cd00009 232721005042 Walker A motif; other site 232721005043 ATP binding site [chemical binding]; other site 232721005044 Walker B motif; other site 232721005045 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 232721005046 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721005047 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721005048 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 232721005049 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 232721005050 FtsX-like permease family; Region: FtsX; pfam02687 232721005051 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 232721005052 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 232721005053 Walker A/P-loop; other site 232721005054 ATP binding site [chemical binding]; other site 232721005055 Q-loop/lid; other site 232721005056 ABC transporter signature motif; other site 232721005057 Walker B; other site 232721005058 D-loop; other site 232721005059 H-loop/switch region; other site 232721005060 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 232721005061 lytic murein transglycosylase; Region: MltB_2; TIGR02283 232721005062 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 232721005063 exonuclease I; Provisional; Region: sbcB; PRK11779 232721005064 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 232721005065 active site 232721005066 substrate binding site [chemical binding]; other site 232721005067 catalytic site [active] 232721005068 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 232721005069 NAD-dependent deacetylase; Provisional; Region: PRK05333 232721005070 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 232721005071 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 232721005072 GAF domain; Region: GAF; cl00853 232721005073 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...; Region: AAA; cd00009 232721005074 Walker A motif; other site 232721005075 ATP binding site [chemical binding]; other site 232721005076 Walker B motif; other site 232721005077 arginine finger; other site 232721005078 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721005079 putative transposase OrfB; Reviewed; Region: PHA02517 232721005080 Integrase core domain; Region: rve; cl01316 232721005081 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 232721005082 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 232721005083 Outer membrane efflux protein; Region: OEP; pfam02321 232721005084 Outer membrane efflux protein; Region: OEP; pfam02321 232721005085 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 232721005086 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 232721005087 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 232721005088 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 232721005089 DNA binding residues [nucleotide binding] 232721005090 dimer interface [polypeptide binding]; other site 232721005091 putative metal binding site [ion binding]; other site 232721005092 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721005093 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721005094 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...; Region: AAA; cd00009 232721005095 Walker A motif; other site 232721005096 ATP binding site [chemical binding]; other site 232721005097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721005098 Integrase core domain; Region: rve; cl01316 232721005099 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721005100 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 232721005101 putative metal dependent hydrolase; Provisional; Region: PRK11598 232721005102 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 232721005103 Sulfatase; Region: Sulfatase; cl10460 232721005104 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721005105 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 232721005106 Integrase core domain; Region: rve; cl01316 232721005107 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 232721005108 nucleophile elbow; other site 232721005109 Patatin phospholipase; Region: DUF3734; pfam12536 232721005110 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 232721005111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 232721005112 Transposase; Region: DDE_Tnp_ISL3; pfam01610 232721005113 Protein of unknown function (DUF421); Region: DUF421; cl00990 232721005114 Transposase domain (DUF772); Region: DUF772; cl12084 232721005115 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721005116 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 232721005117 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 232721005118 active site 232721005119 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721005120 Integrase core domain; Region: rve; cl01316 232721005121 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 232721005122 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721005123 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; cl11391 232721005124 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 232721005125 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 232721005126 Phage integrase protein; Region: DUF3701; pfam12482 232721005127 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 232721005128 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 232721005129 Int/Topo IB signature motif; other site 232721005130 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 232721005131 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 232721005132 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 232721005133 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 232721005134 Int/Topo IB signature motif; other site 232721005135 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 232721005136 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 232721005137 Protein of unknown function (DUF779); Region: DUF779; cl01432 232721005138 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 232721005139 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 232721005140 NAD binding site [chemical binding]; other site 232721005141 substrate binding site [chemical binding]; other site 232721005142 catalytic Zn binding site [ion binding]; other site 232721005143 tetramer interface [polypeptide binding]; other site 232721005144 structural Zn binding site [ion binding]; other site 232721005145 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 232721005146 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721005147 NAD(P) binding site [chemical binding]; other site 232721005148 catalytic residues [active] 232721005149 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 232721005150 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 232721005151 Domain of unknown function DUF20; Region: UPF0118; cl00465 232721005152 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 232721005153 GAF domain; Region: GAF; cl00853 232721005154 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721005155 serine/threonine dehydratase; Validated; Region: PRK07048 232721005156 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 232721005157 tetramer interface [polypeptide binding]; other site 232721005158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721005159 catalytic residue [active] 232721005160 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 232721005161 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 232721005162 heme-binding site [chemical binding]; other site 232721005163 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 232721005164 FAD binding pocket [chemical binding]; other site 232721005165 FAD binding motif [chemical binding]; other site 232721005166 phosphate binding motif [ion binding]; other site 232721005167 beta-alpha-beta structure motif; other site 232721005168 NAD binding pocket [chemical binding]; other site 232721005169 Heme binding pocket [chemical binding]; other site 232721005170 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 232721005171 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...; Region: AAA; cd00009 232721005172 Walker A motif; other site 232721005173 ATP binding site [chemical binding]; other site 232721005174 Walker B motif; other site 232721005175 arginine finger; other site 232721005176 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 232721005177 Domain of unknown function DUF28; Region: DUF28; cl00361 232721005178 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 232721005179 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 232721005180 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721005181 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 232721005182 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 232721005183 Domain of unknown function DUF143; Region: DUF143; cl00519 232721005184 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 232721005185 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 232721005186 active site 232721005187 dimer interface [polypeptide binding]; other site 232721005188 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 232721005189 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 232721005190 ligand binding site [chemical binding]; other site 232721005191 flexible hinge region; other site 232721005192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005193 Cytochrome c; Region: Cytochrom_C; cl11414 232721005194 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 232721005195 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 232721005196 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 232721005197 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 232721005198 FeS/SAM binding site; other site 232721005199 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 232721005200 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721005201 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005202 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721005203 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721005204 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721005205 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 232721005206 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 232721005207 structural tetrad; other site 232721005208 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 232721005209 Cytochrome c; Region: Cytochrom_C; cl11414 232721005210 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 232721005211 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 232721005212 ribonuclease G; Provisional; Region: PRK11712 232721005213 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 232721005214 homodimer interface [polypeptide binding]; other site 232721005215 oligonucleotide binding site [chemical binding]; other site 232721005216 methionine aminotransferase; Validated; Region: PRK09082 232721005217 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 232721005218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721005219 homodimer interface [polypeptide binding]; other site 232721005220 catalytic residue [active] 232721005221 Transposase domain (DUF772); Region: DUF772; cl12084 232721005222 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721005223 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 232721005224 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005225 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 232721005226 substrate binding site [chemical binding]; other site 232721005227 dimerization interface [polypeptide binding]; other site 232721005228 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...; Region: CbiX_SirB_N; cd03416 232721005229 putative active site [active] 232721005230 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 232721005231 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 232721005232 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 232721005233 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 232721005234 multifunctional aminopeptidase A; Provisional; Region: PRK00913 232721005235 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...; Region: Peptidase_M17; cd00433 232721005236 interface (dimer of trimers) [polypeptide binding]; other site 232721005237 Substrate-binding/catalytic site; other site 232721005238 Zn-binding sites [ion binding]; other site 232721005239 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 232721005240 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721005241 Integrase core domain; Region: rve; cl01316 232721005242 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721005243 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 232721005244 dimerization interface [polypeptide binding]; other site 232721005245 ligand binding site [chemical binding]; other site 232721005246 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 232721005247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721005248 Uncharacterized protein conserved in bacteria (DUF2257); Region: DUF2257; cl01794 232721005249 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 232721005250 Ligand Binding Site [chemical binding]; other site 232721005251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721005252 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 232721005253 beta-ketothiolase; Provisional; Region: PRK09051 232721005254 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 232721005255 dimer interface [polypeptide binding]; other site 232721005256 active site 232721005257 short chain dehydrogenase; Provisional; Region: PRK06924 232721005258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721005259 NAD(P) binding site [chemical binding]; other site 232721005260 active site 232721005261 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 232721005262 active site 232721005263 sensory histidine kinase AtoS; Provisional; Region: PRK11360 232721005264 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 trans-...; Region: HisKA; cd00082 232721005265 dimer interface [polypeptide binding]; other site 232721005266 phosphorylation site [posttranslational modification] 232721005267 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 232721005268 ATP binding site [chemical binding]; other site 232721005269 Mg2+ binding site [ion binding]; other site 232721005270 G-X-G motif; other site 232721005271 Response regulator receiver domain; Region: Response_reg; pfam00072 232721005272 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 232721005273 active site 232721005274 phosphorylation site [posttranslational modification] 232721005275 intermolecular recognition site; other site 232721005276 dimerization interface [polypeptide binding]; other site 232721005277 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 232721005278 glycine dehydrogenase; Provisional; Region: PRK05367 232721005279 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...; Region: GDC-P; cd00613 232721005280 tetramer interface [polypeptide binding]; other site 232721005281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721005282 catalytic residue [active] 232721005283 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...; Region: GDC-P; cd00613 232721005284 tetramer interface [polypeptide binding]; other site 232721005285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721005286 catalytic residue [active] 232721005287 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 L-...; Region: GCS_H; cd06848 232721005288 lipoyl attachment site [posttranslational modification]; other site 232721005289 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 232721005290 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 232721005291 DctM-like transporters; Region: DctM; pfam06808 232721005292 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721005293 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 232721005294 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 232721005295 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721005296 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005297 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...; Region: OM_channels; cl00284 232721005298 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721005299 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721005300 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...; Region: OM_channels; cl00284 232721005301 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 232721005302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 232721005303 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 232721005304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721005305 Walker A/P-loop; other site 232721005306 ATP binding site [chemical binding]; other site 232721005307 Q-loop/lid; other site 232721005308 ABC transporter signature motif; other site 232721005309 Walker B; other site 232721005310 D-loop; other site 232721005311 H-loop/switch region; other site 232721005312 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 232721005313 TM-ABC transporter signature motif; other site 232721005314 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 232721005315 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 232721005316 zinc binding site [ion binding]; other site 232721005317 putative ligand binding site [chemical binding]; other site 232721005318 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 232721005319 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721005320 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 232721005321 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 232721005322 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 232721005323 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721005324 sensor protein QseC; Provisional; Region: PRK10337 232721005325 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 232721005326 ATP binding site [chemical binding]; other site 232721005327 Mg2+ binding site [ion binding]; other site 232721005328 G-X-G motif; other site 232721005329 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 232721005330 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 232721005331 active site 232721005332 phosphorylation site [posttranslational modification] 232721005333 intermolecular recognition site; other site 232721005334 dimerization interface [polypeptide binding]; other site 232721005335 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...; Region: trans_reg_C; cd00383 232721005336 DNA binding site [nucleotide binding] 232721005337 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 232721005338 active site 232721005339 putative metal dependent hydrolase; Provisional; Region: PRK11598 232721005340 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 232721005341 Sulfatase; Region: Sulfatase; cl10460 232721005342 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 232721005343 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 232721005344 DTW domain; Region: DTW; cl01221 232721005345 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 232721005346 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 232721005347 tetramer interface [polypeptide binding]; other site 232721005348 heme binding pocket [chemical binding]; other site 232721005349 NADPH binding site [chemical binding]; other site 232721005350 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 232721005351 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721005352 PAS domain S-box; Region: sensory_box; TIGR00229 232721005353 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 232721005354 putative active site [active] 232721005355 heme pocket [chemical binding]; other site 232721005356 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...; Region: LuxR_C_like; cd06170 232721005357 DNA binding residues [nucleotide binding] 232721005358 dimerization interface [polypeptide binding]; other site 232721005359 Coenzyme A transferase; Region: CoA_trans; cl00773 232721005360 Coenzyme A transferase; Region: CoA_trans; cl00773 232721005361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 232721005362 Zn2+ binding site [ion binding]; other site 232721005363 Mg2+ binding site [ion binding]; other site 232721005364 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 232721005365 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 232721005366 Cell division inhibitor SulA; Region: SulA; cl01880 232721005367 Y-family of DNA polymerases; Region: PolY; cl12025 232721005368 DNA binding site [nucleotide binding] 232721005369 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 232721005370 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 232721005371 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 232721005372 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...; Region: DnaE_OBF; cd04485 232721005373 generic binding surface II; other site 232721005374 generic binding surface I; other site 232721005375 Sel1 repeat; Region: Sel1; cl02723 232721005376 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721005377 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721005378 integrase; Provisional; Region: PRK09692 232721005379 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 232721005380 active site 232721005381 Int/Topo IB signature motif; other site 232721005382 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721005383 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 232721005384 tetramerization interface [polypeptide binding]; other site 232721005385 NAD(P) binding site [chemical binding]; other site 232721005386 catalytic residues [active] 232721005387 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 232721005388 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 formation...; Region: AlaRS_core; cd00673 232721005389 motif 1; other site 232721005390 active site 232721005391 motif 2; other site 232721005392 motif 3; other site 232721005393 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 232721005394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721005395 metal binding site [ion binding]; metal-binding site 232721005396 active site 232721005397 I-site; other site 232721005398 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; cl12011 232721005399 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721005400 active site 232721005401 HIGH motif; other site 232721005402 nucleotide binding site [chemical binding]; other site 232721005403 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721005404 active site 232721005405 KMSKS motif; other site 232721005406 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 232721005407 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721005408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721005409 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 232721005410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005411 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 232721005412 dimerization interface [polypeptide binding]; other site 232721005413 Cupin domain; Region: Cupin_2; cl09118 232721005414 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 232721005415 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 232721005416 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 232721005417 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 232721005418 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 232721005419 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 232721005420 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 232721005421 active site 232721005422 tetramer interface [polypeptide binding]; other site 232721005423 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 232721005424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721005425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721005426 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 232721005427 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 232721005428 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 232721005429 putative active site [active] 232721005430 catalytic residue [active] 232721005431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721005432 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 232721005433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721005434 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 232721005435 DNA-binding site [nucleotide binding]; DNA binding site 232721005436 FCD domain; Region: FCD; cl11656 232721005437 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 232721005438 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 232721005439 active site 232721005440 tetramer interface [polypeptide binding]; other site 232721005441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721005442 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 232721005443 galactarate dehydratase; Region: galactar-dH20; TIGR03248 232721005444 SAF domain; Region: SAF; cl00555 232721005445 SAF domain; Region: SAF; cl00555 232721005446 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 232721005447 Protein with unknown function (DUF469); Region: DUF469; cl01237 232721005448 tryptophan synthase, beta chain; Region: PLN02618 232721005449 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 232721005450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721005451 catalytic residue [active] 232721005452 Transposase domain (DUF772); Region: DUF772; cl12084 232721005453 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721005454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721005455 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 232721005456 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721005457 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721005458 active site 232721005459 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 232721005460 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 232721005461 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721005462 tetrameric interface [polypeptide binding]; other site 232721005463 NAD binding site [chemical binding]; other site 232721005464 catalytic residues [active] 232721005465 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721005466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005467 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 232721005468 dimerization interface [polypeptide binding]; other site 232721005469 FOG: CBS domain [General function prediction only]; Region: COG0517 232721005470 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-...; Region: CBS_pair_9; cd04622 232721005471 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 232721005472 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 232721005473 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them...; Region: YcaC_related; cd01012 232721005474 Isochorismatase family; Region: Isochorismatase; pfam00857 232721005475 catalytic triad [active] 232721005476 dimer interface [polypeptide binding]; other site 232721005477 conserved cis-peptide bond; other site 232721005478 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 232721005479 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 232721005480 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721005481 putative diguanylate cyclase; Provisional; Region: PRK09776 232721005482 hypothetical protein; Provisional; Region: PRK13560 232721005483 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 232721005484 putative active site [active] 232721005485 heme pocket [chemical binding]; other site 232721005486 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 232721005487 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 232721005488 putative diguanylate cyclase; Provisional; Region: PRK09776 232721005489 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721005490 metal binding site [ion binding]; metal-binding site 232721005491 active site 232721005492 I-site; other site 232721005493 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 232721005494 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 232721005495 EamA-like transporter family; Region: EamA; cl01037 232721005496 EamA-like transporter family; Region: EamA; cl01037 232721005497 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 232721005498 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 232721005499 DNA binding site [nucleotide binding] 232721005500 active site 232721005501 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 232721005502 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 232721005503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 232721005504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 232721005505 AlkA N-terminal domain; Region: AlkA_N; pfam06029 232721005506 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 232721005507 minor groove reading motif; other site 232721005508 helix-hairpin-helix signature motif; other site 232721005509 active site 232721005510 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 232721005511 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 232721005512 active site 232721005513 substrate binding site [chemical binding]; other site 232721005514 metal binding site [ion binding]; metal-binding site 232721005515 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 232721005516 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 232721005517 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 232721005518 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 232721005519 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 232721005520 hypothetical protein; Provisional; Region: PRK09272 232721005521 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 5,10-...; Region: DHFR; cl00161 232721005522 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 232721005523 Outer membrane efflux protein; Region: OEP; pfam02321 232721005524 Outer membrane efflux protein; Region: OEP; pfam02321 232721005525 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 232721005526 active site residue [active] 232721005527 protein-L-isoaspartate O-methyltransferase; Provisional; Region: PRK13943 232721005528 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 232721005529 S-adenosylmethionine binding site [chemical binding]; other site 232721005530 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721005531 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721005532 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 232721005533 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 232721005534 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 232721005535 N-terminal plug; other site 232721005536 ligand-binding site [chemical binding]; other site 232721005537 Protein of unknown function (DUF342); Region: DUF342; pfam03961 232721005538 Chromate transporter; Region: Chromate_transp; pfam02417 232721005539 Chromate transporter; Region: Chromate_transp; pfam02417 232721005540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005541 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005542 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 232721005543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721005544 NAD(P) binding pocket [chemical binding]; other site 232721005545 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 232721005546 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 232721005547 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721005548 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721005549 Transcriptional regulators [Transcription]; Region: GntR; COG1802 232721005550 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721005551 DNA-binding site [nucleotide binding]; DNA binding site 232721005552 FCD domain; Region: FCD; cl11656 232721005553 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 232721005554 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...; Region: MM_CoA_mutase_alpha_like; cd03679 232721005555 active site 232721005556 substrate binding site [chemical binding]; other site 232721005557 coenzyme B12 binding site [chemical binding]; other site 232721005558 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...; Region: MM_CoA_mut_B12_BD; cd02071 232721005559 B12 binding site [chemical binding]; other site 232721005560 cobalt ligand [ion binding]; other site 232721005561 ArgK protein; Region: ArgK; pfam03308 232721005562 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 232721005563 Walker A; other site 232721005564 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721005565 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 232721005566 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 232721005567 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 232721005568 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 232721005569 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 232721005570 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721005571 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 232721005572 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 232721005573 carboxyltransferase (CT) interaction site; other site 232721005574 biotinylation site [posttranslational modification]; other site 232721005575 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 232721005576 dimer interface [polypeptide binding]; other site 232721005577 substrate binding site [chemical binding]; other site 232721005578 metal binding site [ion binding]; metal-binding site 232721005579 biotin synthase; Provisional; Region: PRK15108 232721005580 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 232721005581 FeS/SAM binding site; other site 232721005582 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 232721005583 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 232721005584 classical (c) SDRs; Region: SDR_c; cd05233 232721005585 NAD(P) binding site [chemical binding]; other site 232721005586 active site 232721005587 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 232721005588 dimer interface [polypeptide binding]; other site 232721005589 active site 232721005590 metal binding site [ion binding]; metal-binding site 232721005591 glutathione binding site [chemical binding]; other site 232721005592 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 232721005593 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 232721005594 active site 232721005595 intersubunit interface [polypeptide binding]; other site 232721005596 catalytic residue [active] 232721005597 Dehydratase family; Region: ILVD_EDD; cl00340 232721005598 6-phosphogluconate dehydratase; Region: edd; TIGR01196 232721005599 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 232721005600 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721005601 DctM-like transporters; Region: DctM; pfam06808 232721005602 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 232721005603 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 232721005604 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 232721005605 ATP-binding site [chemical binding]; other site 232721005606 Gluconate-6-phosphate binding site [chemical binding]; other site 232721005607 Transcriptional regulators [Transcription]; Region: PurR; COG1609 232721005608 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 232721005609 DNA binding site [nucleotide binding] 232721005610 domain linker motif; other site 232721005611 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 232721005612 putative ligand binding site [chemical binding]; other site 232721005613 putative dimerization interface [polypeptide binding]; other site 232721005614 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 232721005615 ligand binding site [chemical binding]; other site 232721005616 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 232721005617 putative active site pocket [active] 232721005618 dimerization interface [polypeptide binding]; other site 232721005619 putative catalytic residue [active] 232721005620 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 232721005621 E-class dimer interface [polypeptide binding]; other site 232721005622 P-class dimer interface [polypeptide binding]; other site 232721005623 active site 232721005624 Cu2+ binding site [ion binding]; other site 232721005625 Zn2+ binding site [ion binding]; other site 232721005626 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 232721005627 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 232721005628 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 232721005629 Membrane transport protein; Region: Mem_trans; cl09117 232721005630 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 232721005631 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...; Region: DUS_like_FMN; cd02801 232721005632 FMN binding site [chemical binding]; other site 232721005633 active site 232721005634 catalytic residues [active] 232721005635 substrate binding site [chemical binding]; other site 232721005636 CHASE domain; Region: CHASE; cl01369 232721005637 PAS fold; Region: PAS_4; pfam08448 232721005638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721005639 metal binding site [ion binding]; metal-binding site 232721005640 active site 232721005641 I-site; other site 232721005642 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 232721005643 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 232721005644 synthetase active site [active] 232721005645 NTP binding site [chemical binding]; other site 232721005646 metal binding site [ion binding]; metal-binding site 232721005647 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 232721005648 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 232721005649 ferredoxin; Provisional; Region: PRK08764 232721005650 Putative Fe-S cluster; Region: FeS; pfam04060 232721005651 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 232721005652 electron transport complex protein RnfC; Provisional; Region: PRK05035 232721005653 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 connected by an extended linker. The...; Region: HAMP; cd06225 232721005654 dimerization interface [polypeptide binding]; other site 232721005655 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721005656 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721005657 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 232721005658 aspartate aminotransferase; Provisional; Region: PRK08361 232721005659 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 232721005660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721005661 homodimer interface [polypeptide binding]; other site 232721005662 catalytic residue [active] 232721005663 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 232721005664 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 232721005665 active site 232721005666 substrate binding site [chemical binding]; other site 232721005667 trimer interface [polypeptide binding]; other site 232721005668 CoA binding site [chemical binding]; other site 232721005669 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 232721005670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721005671 Walker A motif; other site 232721005672 ATP binding site [chemical binding]; other site 232721005673 Walker B motif; other site 232721005674 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 232721005675 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 232721005676 metal binding site [ion binding]; metal-binding site 232721005677 dimer interface [polypeptide binding]; other site 232721005678 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 232721005679 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 232721005680 S-adenosylmethionine binding site [chemical binding]; other site 232721005681 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 232721005682 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 232721005683 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 232721005684 ABC transporter; Region: ABC_tran_2; pfam12848 232721005685 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 232721005686 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 232721005687 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 232721005688 NAD(P) binding site [chemical binding]; other site 232721005689 homotetramer interface [polypeptide binding]; other site 232721005690 homodimer interface [polypeptide binding]; other site 232721005691 active site 232721005692 putative acyltransferase; Provisional; Region: PRK05790 232721005693 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 232721005694 dimer interface [polypeptide binding]; other site 232721005695 active site 232721005696 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 232721005697 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 232721005698 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 232721005699 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 232721005700 GST_N family, Class Zeta 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_Zeta; cd03042 232721005701 maleylacetoacetate isomerase; Region: maiA; TIGR01262 232721005702 C-terminal domain interface [polypeptide binding]; other site 232721005703 GSH binding site (G-site) [chemical binding]; other site 232721005704 putative dimer interface [polypeptide binding]; other site 232721005705 GST_C family, Class Zeta 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_C_Zeta; cd03191 232721005706 N-terminal domain interface [polypeptide binding]; other site 232721005707 dimer interface [polypeptide binding]; other site 232721005708 putative maleylacetoacetate (MAA) substrate binding site (H site); other site 232721005709 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 232721005710 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_4; cd04511 232721005711 nudix motif; other site 232721005712 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 232721005713 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721005714 putative substrate translocation pore; other site 232721005715 Transglycosylase; Region: Transgly; cl07896 232721005716 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 232721005717 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 232721005718 hypothetical protein; Provisional; Region: PRK10279 232721005719 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 232721005720 nucleophile elbow; other site 232721005721 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 232721005722 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 232721005723 nucleotide binding pocket [chemical binding]; other site 232721005724 K-X-D-G motif; other site 232721005725 catalytic site [active] 232721005726 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 232721005727 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 232721005728 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 232721005729 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 232721005730 Dimer interface [polypeptide binding]; other site 232721005731 BRCT sequence motif; other site 232721005732 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 232721005733 active site 232721005734 metal binding site [ion binding]; metal-binding site 232721005735 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 232721005736 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 232721005737 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 232721005738 Walker A/P-loop; other site 232721005739 ATP binding site [chemical binding]; other site 232721005740 Q-loop/lid; other site 232721005741 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 232721005742 Q-loop/lid; other site 232721005743 ABC transporter signature motif; other site 232721005744 Walker B; other site 232721005745 D-loop; other site 232721005746 H-loop/switch region; other site 232721005747 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 232721005748 CHASE domain; Region: CHASE; cl01369 232721005749 PAS domain S-box; Region: sensory_box; TIGR00229 232721005750 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 232721005751 putative active site [active] 232721005752 heme pocket [chemical binding]; other site 232721005753 hypothetical protein; Provisional; Region: PRK13560 232721005754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721005755 metal binding site [ion binding]; metal-binding site 232721005756 active site 232721005757 I-site; other site 232721005758 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 232721005759 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 232721005760 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 232721005761 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721005762 Walker A/P-loop; other site 232721005763 ATP binding site [chemical binding]; other site 232721005764 Q-loop/lid; other site 232721005765 ABC transporter signature motif; other site 232721005766 Walker B; other site 232721005767 D-loop; other site 232721005768 H-loop/switch region; other site 232721005769 putative transporter; Provisional; Region: PRK10504 232721005770 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 232721005771 putative substrate translocation pore; other site 232721005772 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 232721005773 NlpC/P60 family; Region: NLPC_P60; cl11438 232721005774 EVE domain; Region: EVE; cl00728 232721005775 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 232721005776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721005777 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; cl12011 232721005778 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 232721005779 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 232721005780 E3 interaction surface; other site 232721005781 lipoyl attachment site [posttranslational modification]; other site 232721005782 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721005783 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 232721005784 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721005785 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 232721005786 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 232721005787 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 232721005788 putative NAD(P) binding site [chemical binding]; other site 232721005789 catalytic Zn binding site [ion binding]; other site 232721005790 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 232721005791 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 232721005792 homotetramer interface [polypeptide binding]; other site 232721005793 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 232721005794 NAD binding site [chemical binding]; other site 232721005795 homodimer interface [polypeptide binding]; other site 232721005796 active site 232721005797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 232721005798 Transposase; Region: DDE_Tnp_ISL3; pfam01610 232721005799 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 232721005800 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 232721005801 dimer interface [polypeptide binding]; other site 232721005802 FMN binding site [chemical binding]; other site 232721005803 MgtC family; Region: MgtC; cl12207 232721005804 Putative transposase; Region: Y2_Tnp; pfam04986 232721005805 Leucine carboxyl methyltransferase; Region: LCM; cl01306 232721005806 cystine transporter subunit; Provisional; Region: PRK11260 232721005807 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...; Region: PBPb; cd00134 232721005808 substrate binding pocket [chemical binding]; other site 232721005809 membrane-bound complex binding site; other site 232721005810 hinge residues; other site 232721005811 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 232721005812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721005813 dimer interface [polypeptide binding]; other site 232721005814 conserved gate region; other site 232721005815 putative PBP binding loops; other site 232721005816 ABC-ATPase subunit interface; other site 232721005817 Protein of unknown function (DUF523); Region: DUF523; cl00733 232721005818 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 232721005819 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 232721005820 Predicted transcriptional regulator [Transcription]; Region: COG1959 232721005821 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005822 Putative transposase; Region: Y2_Tnp; pfam04986 232721005823 Transposase domain (DUF772); Region: DUF772; cl12084 232721005824 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721005825 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 232721005826 E3 interaction surface; other site 232721005827 lipoyl attachment site [posttranslational modification]; other site 232721005828 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721005829 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 232721005830 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 232721005831 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 232721005832 E3 interaction surface; other site 232721005833 lipoyl attachment site [posttranslational modification]; other site 232721005834 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 232721005835 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 232721005836 E3 interaction surface; other site 232721005837 lipoyl attachment site [posttranslational modification]; other site 232721005838 e3 binding domain; Region: E3_binding; pfam02817 232721005839 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 232721005840 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 232721005841 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 232721005842 dimer interface [polypeptide binding]; other site 232721005843 TPP-binding site [chemical binding]; other site 232721005844 PAS domain S-box; Region: sensory_box; TIGR00229 232721005845 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 232721005846 putative active site [active] 232721005847 heme pocket [chemical binding]; other site 232721005848 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 trans-...; Region: HisKA; cd00082 232721005849 dimer interface [polypeptide binding]; other site 232721005850 phosphorylation site [posttranslational modification] 232721005851 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 232721005852 ATP binding site [chemical binding]; other site 232721005853 Mg2+ binding site [ion binding]; other site 232721005854 G-X-G motif; other site 232721005855 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 232721005856 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 232721005857 active site 232721005858 phosphorylation site [posttranslational modification] 232721005859 intermolecular recognition site; other site 232721005860 dimerization interface [polypeptide binding]; other site 232721005861 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...; Region: LuxR_C_like; cd06170 232721005862 DNA binding residues [nucleotide binding] 232721005863 dimerization interface [polypeptide binding]; other site 232721005864 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 232721005865 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 232721005866 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 232721005867 homodimer interface [polypeptide binding]; other site 232721005868 NADP binding site [chemical binding]; other site 232721005869 substrate binding site [chemical binding]; other site 232721005870 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 232721005871 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 232721005872 active site 232721005873 Zn binding site [ion binding]; other site 232721005874 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...; Region: NrdH; cd02976 232721005875 catalytic residues [active] 232721005876 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 232721005877 tetramer (dimer of dimers) interface [polypeptide binding]; other site 232721005878 active site 232721005879 dimer interface [polypeptide binding]; other site 232721005880 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...; Region: DHOD_2_like; cd04738 232721005881 quinone interaction residues [chemical binding]; other site 232721005882 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 232721005883 active site 232721005884 catalytic residues [active] 232721005885 FMN binding site [chemical binding]; other site 232721005886 substrate binding site [chemical binding]; other site 232721005887 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 232721005888 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 232721005889 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 232721005890 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 232721005891 Proteobacterial; Region: dnaQ_proteo; TIGR01406 232721005892 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 232721005893 active site 232721005894 substrate binding site [chemical binding]; other site 232721005895 catalytic site [active] 232721005896 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 232721005897 catalytic loop [active] 232721005898 iron binding site [ion binding]; other site 232721005899 chaperone protein HscA; Provisional; Region: hscA; PRK05183 232721005900 co-chaperone HscB; Provisional; Region: hscB; PRK03578 232721005901 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...; Region: DnaJ; cl02542 232721005902 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 232721005903 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 232721005904 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 232721005905 trimerization site [polypeptide binding]; other site 232721005906 active site 232721005907 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 232721005908 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 232721005909 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721005910 catalytic residue [active] 232721005911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721005912 Rrf2 family protein; Region: rrf2_super; TIGR00738 232721005913 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721005914 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721005915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 232721005916 Transposase; Region: DDE_Tnp_ISL3; pfam01610 232721005917 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721005918 Integrase core domain; Region: rve; cl01316 232721005919 excinuclease ABC subunit B; Provisional; Region: PRK05298 232721005920 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 232721005921 ATP binding site [chemical binding]; other site 232721005922 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 232721005923 nucleotide binding region [chemical binding]; other site 232721005924 ATP-binding site [chemical binding]; other site 232721005925 Ultra-violet resistance protein B; Region: UvrB; pfam12344 232721005926 UvrB/uvrC motif; Region: UVR; pfam02151 232721005927 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 232721005928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721005929 homodimer interface [polypeptide binding]; other site 232721005930 catalytic residue [active] 232721005931 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 232721005932 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721005933 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 connected by an extended linker. The...; Region: HAMP; cd06225 232721005934 dimerization interface [polypeptide binding]; other site 232721005935 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721005936 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721005937 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 232721005938 Transposase, Mutator family; Region: Transposase_mut; pfam00872 232721005939 MULE transposase domain; Region: MULE; pfam10551 232721005940 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 232721005941 Integrase core domain; Region: rve; cl01316 232721005942 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 232721005943 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 232721005944 S-adenosylmethionine binding site [chemical binding]; other site 232721005945 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 232721005946 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 232721005947 motif II; other site 232721005948 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; cl11391 232721005949 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 232721005950 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 232721005951 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 232721005952 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 232721005953 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 232721005954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721005955 phosphoenolpyruvate synthase; Validated; Region: PRK06464 232721005956 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 232721005957 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 232721005958 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; cl09155 232721005959 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 232721005960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721005961 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 232721005962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721005963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721005964 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 232721005965 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 232721005966 Integrase core domain; Region: rve; cl01316 232721005967 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 232721005968 Bacterial TniB protein; Region: TniB; pfam05621 232721005969 TniQ; Region: TniQ; pfam06527 232721005970 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 232721005971 non-specific DNA binding site [nucleotide binding]; other site 232721005972 salt bridge; other site 232721005973 sequence-specific DNA binding site [nucleotide binding]; other site 232721005974 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721005975 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 232721005976 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 232721005977 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 232721005978 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 232721005979 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 232721005980 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 232721005981 TraU protein; Region: TraU; cl06067 232721005982 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 232721005983 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 232721005984 MPN+ (JAMM) motif; other site 232721005985 Zinc-binding site [ion binding]; other site 232721005986 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 232721005987 catalytic residues [active] 232721005988 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 232721005989 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 232721005990 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 232721005991 Protein of unknown function (DUF904); Region: DUF904; cl11531 232721005992 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 232721005993 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 232721005994 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 232721005995 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 232721005996 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 232721005997 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; cl09893 232721005998 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721005999 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; cl12011 232721006000 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 232721006001 cofactor binding site; other site 232721006002 DNA binding site [nucleotide binding] 232721006003 substrate interaction site [chemical binding]; other site 232721006004 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 232721006005 putative active site [active] 232721006006 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 232721006007 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 232721006008 ATP binding site [chemical binding]; other site 232721006009 putative Mg++ binding site [ion binding]; other site 232721006010 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 232721006011 nucleotide binding region [chemical binding]; other site 232721006012 ATP-binding site [chemical binding]; other site 232721006013 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 232721006014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 232721006015 Transposase; Region: DDE_Tnp_ISL3; pfam01610 232721006016 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 232721006017 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 232721006018 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; cl14882 232721006019 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 232721006020 Putative catalytic domain of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar4; cd09132 232721006021 putative active site [active] 232721006022 putative catalytic site [active] 232721006023 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 232721006024 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 232721006025 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 232721006026 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 232721006027 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 232721006028 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 232721006029 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721006030 Predicted ATPase [General function prediction only]; Region: COG5293 232721006031 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 232721006032 TIR domain; Region: TIR; cl02060 232721006033 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 232721006034 binding surface 232721006035 TPR motif; other site 232721006036 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 232721006037 binding surface 232721006038 TPR motif; other site 232721006039 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 232721006040 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 232721006041 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 232721006042 putative active site [active] 232721006043 putative NTP binding site [chemical binding]; other site 232721006044 putative nucleic acid binding site [nucleotide binding]; other site 232721006045 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 232721006046 DEAD-like helicases superfamily; Region: DEXDc; smart00487 232721006047 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 232721006048 nucleotide binding region [chemical binding]; other site 232721006049 ATP-binding site [chemical binding]; other site 232721006050 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; cl12011 232721006051 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 232721006052 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 232721006053 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 232721006054 DNA topoisomerase III; Provisional; Region: PRK07726 232721006055 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 232721006056 active site 232721006057 putative interdomain interaction site [polypeptide binding]; other site 232721006058 putative metal-binding site [ion binding]; other site 232721006059 putative nucleotide binding site [chemical binding]; other site 232721006060 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...; Region: TOP1Ac; cd00186 232721006061 domain I; other site 232721006062 DNA binding groove [nucleotide binding] 232721006063 phosphate binding site [ion binding]; other site 232721006064 domain II; other site 232721006065 domain III; other site 232721006066 nucleotide binding site [chemical binding]; other site 232721006067 catalytic site [active] 232721006068 domain IV; other site 232721006069 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 232721006070 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 232721006071 dimer interface [polypeptide binding]; other site 232721006072 ssDNA binding site [nucleotide binding]; other site 232721006073 tetramer (dimer of dimers) interface [polypeptide binding]; other site 232721006074 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 232721006075 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 232721006076 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 232721006077 RelB antitoxin; Region: RelB; cl01171 232721006078 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721006079 hypothetical protein; Provisional; Region: PRK01254 232721006080 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; cl14056 232721006081 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 232721006082 Uncharacterized conserved protein [Function unknown]; Region: COG1739 232721006083 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 232721006084 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 232721006085 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 232721006086 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721006087 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 232721006088 FAD dependent oxidoreductase; Region: DAO; pfam01266 232721006089 amidase; Provisional; Region: PRK07486 232721006090 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 232721006091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721006092 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 232721006093 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 232721006094 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721006095 catalytic residue [active] 232721006096 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 232721006097 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721006098 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 232721006099 dimerization interface [polypeptide binding]; other site 232721006100 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 232721006101 non-specific DNA binding site [nucleotide binding]; other site 232721006102 salt bridge; other site 232721006103 sequence-specific DNA binding site [nucleotide binding]; other site 232721006104 HipA N-terminal domain; Region: couple_hipA; TIGR03071 232721006105 HipA-like N-terminal domain; Region: HipA_N; pfam07805 232721006106 HipA-like C-terminal domain; Region: HipA_C; pfam07804 232721006107 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721006108 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 232721006109 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 232721006110 putative dimerization interface [polypeptide binding]; other site 232721006111 Domain of unknown function (DUF897); Region: DUF897; cl01312 232721006112 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 232721006113 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 232721006114 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 232721006115 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 232721006116 Chromate transporter; Region: Chromate_transp; pfam02417 232721006117 Chromate transporter; Region: Chromate_transp; pfam02417 232721006118 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 232721006119 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes...; Region: SIRT5_Af1_CobB; cd01412 232721006120 NAD+ binding site [chemical binding]; other site 232721006121 substrate binding site [chemical binding]; other site 232721006122 Zn binding site [ion binding]; other site 232721006123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721006124 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 232721006125 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 232721006126 dimer interface [polypeptide binding]; other site 232721006127 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 232721006128 putative hydrophobic ligand binding site [chemical binding]; other site 232721006129 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 232721006130 dimer interface [polypeptide binding]; other site 232721006131 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 232721006132 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 232721006133 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 232721006134 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 232721006135 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 232721006136 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 232721006137 Walker A/P-loop; other site 232721006138 ATP binding site [chemical binding]; other site 232721006139 Q-loop/lid; other site 232721006140 ABC transporter signature motif; other site 232721006141 Walker B; other site 232721006142 D-loop; other site 232721006143 H-loop/switch region; other site 232721006144 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 232721006145 active site 232721006146 catalytic triad [active] 232721006147 oxyanion hole [active] 232721006148 switch loop; other site 232721006149 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 232721006150 cystathionine beta-lyase; Provisional; Region: PRK07050 232721006151 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 232721006152 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721006153 catalytic residue [active] 232721006154 BON domain; Region: BON; cl02771 232721006155 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 232721006156 Sulfate transporter family; Region: Sulfate_transp; cl00967 232721006157 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 232721006158 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721006159 metal binding site [ion binding]; metal-binding site 232721006160 active site 232721006161 I-site; other site 232721006162 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 232721006163 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...; Region: MinD; cd02036 232721006164 P-loop; other site 232721006165 ADP binding residues [chemical binding]; other site 232721006166 Switch I; other site 232721006167 Switch II; other site 232721006168 Pirin-related protein [General function prediction only]; Region: COG1741 232721006169 Cupin domain; Region: Cupin_2; cl09118 232721006170 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 232721006171 OsmC-like protein; Region: OsmC; cl00767 232721006172 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 232721006173 dimer interface [polypeptide binding]; other site 232721006174 catalytic triad [active] 232721006175 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 232721006176 nucleoside/Zn binding site; other site 232721006177 dimer interface [polypeptide binding]; other site 232721006178 catalytic motif [active] 232721006179 haloalkane dehalogenase; Provisional; Region: PRK00870 232721006180 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 232721006181 Peptidase family U32; Region: Peptidase_U32; cl03113 232721006182 Collagenase; Region: DUF3656; pfam12392 232721006183 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 232721006184 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 232721006185 homodimer interface [polypeptide binding]; other site 232721006186 substrate-cofactor binding pocket; other site 232721006187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721006188 catalytic residue [active] 232721006189 TIGR03440 family protein; Region: unchr_TIGR03440 232721006190 DinB superfamily; Region: DinB_2; cl00986 232721006191 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 232721006192 probable methyltransferase; Region: TIGR03438 232721006193 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 232721006194 Surface antigen; Region: Surface_Ag_2; cl01155 232721006195 Protein of unknown function (DUF808); Region: DUF808; cl01002 232721006196 methionine aminopeptidase; Reviewed; Region: PRK07281 232721006197 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 232721006198 active site 232721006199 PII uridylyl-transferase; Provisional; Region: PRK03059 232721006200 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 232721006201 metal binding triad; other site 232721006202 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 232721006203 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721006204 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 232721006205 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 232721006206 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(...; Region: Pep_deformylase; cd00487 232721006207 active site 232721006208 catalytic residues [active] 232721006209 metal binding site [ion binding]; metal-binding site 232721006210 Protein of unknown function (DUF454); Region: DUF454; cl01063 232721006211 isocitrate dehydrogenase; Validated; Region: PRK07362 232721006212 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 232721006213 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 232721006214 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 232721006215 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 232721006216 superoxide dismutase; Provisional; Region: PRK10543 232721006217 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 232721006218 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 232721006219 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 232721006220 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 232721006221 generic binding surface II; other site 232721006222 generic binding surface I; other site 232721006223 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 232721006224 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 232721006225 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 232721006226 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 232721006227 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 232721006228 Trm112p-like protein; Region: Trm112p; cl01066 232721006229 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 232721006230 Ligand binding site [chemical binding]; other site 232721006231 oligomer interface [polypeptide binding]; other site 232721006232 adenylate kinase; Reviewed; Region: adk; PRK00279 232721006233 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 232721006234 AMP-binding site [chemical binding]; other site 232721006235 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 232721006236 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 232721006237 active site/substrate binding site [active] 232721006238 tetramer interface [polypeptide binding]; other site 232721006239 LexA repressor; Validated; Region: PRK00215 232721006240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721006241 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 (...; Region: S24_LexA-like; cd06529 232721006242 Catalytic site [active] 232721006243 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 232721006244 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 232721006245 ATP binding site [chemical binding]; other site 232721006246 putative Mg++ binding site [ion binding]; other site 232721006247 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 232721006248 nucleotide binding region [chemical binding]; other site 232721006249 ATP-binding site [chemical binding]; other site 232721006250 Helicase associated domain (HA2); Region: HA2; cl04503 232721006251 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 232721006252 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 232721006253 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 232721006254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721006255 SAF domain; Region: SAF; cl00555 232721006256 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 232721006257 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 232721006258 putative active site [active] 232721006259 putative metal binding site [ion binding]; other site 232721006260 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...; Region: Nitroreductase; cd02136 232721006261 putative FMN binding site [chemical binding]; other site 232721006262 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 232721006263 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 232721006264 dimer interface [polypeptide binding]; other site 232721006265 active site 232721006266 acyl-CoA synthetase; Validated; Region: PRK07788 232721006267 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721006268 BioY family; Region: BioY; cl00560 232721006269 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 232721006270 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 232721006271 Walker A/P-loop; other site 232721006272 ATP binding site [chemical binding]; other site 232721006273 Q-loop/lid; other site 232721006274 ABC transporter signature motif; other site 232721006275 Walker B; other site 232721006276 D-loop; other site 232721006277 H-loop/switch region; other site 232721006278 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 232721006279 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721006280 putative substrate translocation pore; other site 232721006281 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 232721006282 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 232721006283 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; cl12011 232721006284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721006285 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 232721006286 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 232721006287 N-acetylglutamate synthase; Validated; Region: PRK05279 232721006288 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 N-...; Region: AAK_NAGS-ABP; cd04237 232721006289 putative feedback inhibition sensing region; other site 232721006290 putative nucleotide binding site [chemical binding]; other site 232721006291 putative substrate binding site [chemical binding]; other site 232721006292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 232721006293 Beta-lactamase; Region: Beta-lactamase; cl01009 232721006294 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 232721006295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721006296 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 232721006297 dimerization interface [polypeptide binding]; other site 232721006298 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 232721006299 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 232721006300 Glutathione S-transferase (GST) family, C-terminal alpha helical 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...; Region: GST_C_family; cl02776 232721006301 N-terminal domain interface [polypeptide binding]; other site 232721006302 dimer interface [polypeptide binding]; other site 232721006303 substrate binding pocket (H-site) [chemical binding]; other site 232721006304 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 232721006305 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 232721006306 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-...; Region: ABC_CysA_sulfate_importer; cd03296 232721006307 Walker A/P-loop; other site 232721006308 ATP binding site [chemical binding]; other site 232721006309 Q-loop/lid; other site 232721006310 ABC transporter signature motif; other site 232721006311 Walker B; other site 232721006312 D-loop; other site 232721006313 H-loop/switch region; other site 232721006314 TOBE-like domain; Region: TOBE_3; pfam12857 232721006315 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721006316 dimer interface [polypeptide binding]; other site 232721006317 conserved gate region; other site 232721006318 putative PBP binding loops; other site 232721006319 ABC-ATPase subunit interface; other site 232721006320 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 232721006321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721006322 dimer interface [polypeptide binding]; other site 232721006323 conserved gate region; other site 232721006324 putative PBP binding loops; other site 232721006325 ABC-ATPase subunit interface; other site 232721006326 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 232721006327 LysR family transcriptional regulator; Provisional; Region: PRK14997 232721006328 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_4; cd08473 232721006329 putative effector binding pocket; other site 232721006330 putative dimerization interface [polypeptide binding]; other site 232721006331 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 232721006332 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 232721006333 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 232721006334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721006335 dimer interface [polypeptide binding]; other site 232721006336 conserved gate region; other site 232721006337 ABC-ATPase subunit interface; other site 232721006338 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 232721006339 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 232721006340 Walker A/P-loop; other site 232721006341 ATP binding site [chemical binding]; other site 232721006342 Q-loop/lid; other site 232721006343 ABC transporter signature motif; other site 232721006344 Walker B; other site 232721006345 D-loop; other site 232721006346 H-loop/switch region; other site 232721006347 NIL domain; Region: NIL; pfam09383 232721006348 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 232721006349 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721006350 putative substrate translocation pore; other site 232721006351 MAPEG family; Region: MAPEG; cl09190 232721006352 recombination protein RecR; Reviewed; Region: recR; PRK00076 232721006353 RecR protein; Region: RecR; pfam02132 232721006354 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 232721006355 putative active site [active] 232721006356 putative metal-binding site [ion binding]; other site 232721006357 tetramer interface [polypeptide binding]; other site 232721006358 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 232721006359 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 232721006360 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...; Region: AAA; cd00009 232721006361 Walker A motif; other site 232721006362 ATP binding site [chemical binding]; other site 232721006363 Walker B motif; other site 232721006364 arginine finger; other site 232721006365 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 232721006366 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 232721006367 Predicted flavoproteins [General function prediction only]; Region: COG2081 232721006368 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721006369 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 232721006370 S-adenosylmethionine binding site [chemical binding]; other site 232721006371 UvrD/REP helicase; Region: UvrD-helicase; cl14126 232721006372 putative recombination protein RecB; Provisional; Region: PRK13909 232721006373 UvrD/REP helicase; Region: UvrD-helicase; cl14126 232721006374 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 232721006375 UvrD/REP helicase; Region: UvrD-helicase; cl14126 232721006376 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 232721006377 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 232721006378 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 232721006379 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 232721006380 catalytic residues [active] 232721006381 transcription termination factor Rho; Provisional; Region: rho; PRK09376 232721006382 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 232721006383 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...; Region: Rho_CSD; cd04459 232721006384 RNA binding site [nucleotide binding]; other site 232721006385 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...; Region: rho_factor; cd01128 232721006386 multimer interface [polypeptide binding]; other site 232721006387 Walker A motif; other site 232721006388 ATP binding site [chemical binding]; other site 232721006389 Walker B motif; other site 232721006390 NodT family; Region: outer_NodT; TIGR01845 232721006391 Outer membrane efflux protein; Region: OEP; pfam02321 232721006392 Outer membrane efflux protein; Region: OEP; pfam02321 232721006393 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 232721006394 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 232721006395 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 232721006396 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721006397 Walker A/P-loop; other site 232721006398 ATP binding site [chemical binding]; other site 232721006399 Q-loop/lid; other site 232721006400 ABC transporter signature motif; other site 232721006401 Walker B; other site 232721006402 D-loop; other site 232721006403 H-loop/switch region; other site 232721006404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721006405 Walker A/P-loop; other site 232721006406 ATP binding site [chemical binding]; other site 232721006407 Q-loop/lid; other site 232721006408 ABC transporter signature motif; other site 232721006409 Walker B; other site 232721006410 D-loop; other site 232721006411 H-loop/switch region; other site 232721006412 ABC-2 type transporter; Region: ABC2_membrane; cl11417 232721006413 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 232721006414 ABC-2 type transporter; Region: ABC2_membrane; cl11417 232721006415 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 232721006416 putative efflux protein, MATE family; Region: matE; TIGR00797 232721006417 MatE; Region: MatE; pfam01554 232721006418 MatE; Region: MatE; pfam01554 232721006419 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 232721006420 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 232721006421 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 trans-...; Region: HisKA; cd00082 232721006422 dimer interface [polypeptide binding]; other site 232721006423 phosphorylation site [posttranslational modification] 232721006424 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 232721006425 ATP binding site [chemical binding]; other site 232721006426 Mg2+ binding site [ion binding]; other site 232721006427 G-X-G motif; other site 232721006428 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 232721006429 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 232721006430 active site 232721006431 phosphorylation site [posttranslational modification] 232721006432 intermolecular recognition site; other site 232721006433 dimerization interface [polypeptide binding]; other site 232721006434 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...; Region: trans_reg_C; cd00383 232721006435 DNA binding site [nucleotide binding] 232721006436 transcriptional regulator PhoU; Provisional; Region: PRK11115 232721006437 PhoU domain; Region: PhoU; pfam01895 232721006438 PhoU domain; Region: PhoU; pfam01895 232721006439 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 232721006440 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 232721006441 Walker A/P-loop; other site 232721006442 ATP binding site [chemical binding]; other site 232721006443 Q-loop/lid; other site 232721006444 ABC transporter signature motif; other site 232721006445 Walker B; other site 232721006446 D-loop; other site 232721006447 H-loop/switch region; other site 232721006448 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 232721006449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721006450 dimer interface [polypeptide binding]; other site 232721006451 conserved gate region; other site 232721006452 putative PBP binding loops; other site 232721006453 ABC-ATPase subunit interface; other site 232721006454 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 232721006455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721006456 dimer interface [polypeptide binding]; other site 232721006457 conserved gate region; other site 232721006458 putative PBP binding loops; other site 232721006459 ABC-ATPase subunit interface; other site 232721006460 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 232721006461 Fasciclin domain; Region: Fasciclin; cl02663 232721006462 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721006463 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 232721006464 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 232721006465 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 232721006466 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 232721006467 catalytic core [active] 232721006468 polyphosphate kinase; Provisional; Region: PRK05443 232721006469 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 232721006470 putative active site [active] 232721006471 catalytic site [active] 232721006472 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 232721006473 putative active site [active] 232721006474 catalytic site [active] 232721006475 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 232721006476 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 232721006477 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721006478 metal binding site [ion binding]; metal-binding site 232721006479 active site 232721006480 I-site; other site 232721006481 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 232721006482 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 232721006483 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 UDP-N-...; Region: GlmM; cd05802 232721006484 active site 232721006485 substrate binding site [chemical binding]; other site 232721006486 metal binding site [ion binding]; metal-binding site 232721006487 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 232721006488 dihydropteroate synthase; Region: DHPS; TIGR01496 232721006489 substrate binding pocket [chemical binding]; other site 232721006490 dimer interface [polypeptide binding]; other site 232721006491 inhibitor binding site; inhibition site 232721006492 FtsH Extracellular; Region: FtsH_ext; pfam06480 232721006493 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 232721006494 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...; Region: AAA; cd00009 232721006495 Walker A motif; other site 232721006496 ATP binding site [chemical binding]; other site 232721006497 Walker B motif; other site 232721006498 arginine finger; other site 232721006499 Peptidase family M41; Region: Peptidase_M41; pfam01434 232721006500 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; cl12011 232721006501 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 232721006502 Protein of unknown function (DUF2843); Region: DUF2843; pfam11004 232721006503 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 232721006504 domain; Region: GreA_GreB_N; pfam03449 232721006505 C-term; Region: GreA_GreB; pfam01272 232721006506 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 232721006507 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 232721006508 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721006509 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 232721006510 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 232721006511 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721006512 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 232721006513 IMP binding site; other site 232721006514 dimer interface [polypeptide binding]; other site 232721006515 interdomain contacts; other site 232721006516 partial ornithine binding site; other site 232721006517 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 232721006518 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 232721006519 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 232721006520 catalytic site [active] 232721006521 subunit interface [polypeptide binding]; other site 232721006522 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 232721006523 DNA binding residues [nucleotide binding] 232721006524 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 232721006525 IHF - DNA interface [nucleotide binding]; other site 232721006526 IHF dimer interface [polypeptide binding]; other site 232721006527 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 232721006528 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 232721006529 putative tRNA-binding site [nucleotide binding]; other site 232721006530 B3/4 domain; Region: B3_4; cl11458 232721006531 tRNA synthetase B5 domain; Region: B5; cl08394 232721006532 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 232721006533 dimer interface [polypeptide binding]; other site 232721006534 motif 1; other site 232721006535 motif 3; other site 232721006536 motif 2; other site 232721006537 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 232721006538 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 232721006539 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 232721006540 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 232721006541 dimer interface [polypeptide binding]; other site 232721006542 motif 1; other site 232721006543 active site 232721006544 motif 2; other site 232721006545 motif 3; other site 232721006546 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 232721006547 23S rRNA binding site [nucleotide binding]; other site 232721006548 L21 binding site [polypeptide binding]; other site 232721006549 L13 binding site [polypeptide binding]; other site 232721006550 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 232721006551 translation initiation factor IF-3; Region: infC; TIGR00168 232721006552 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 232721006553 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 232721006554 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 232721006555 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...; Region: TGS_ThrRS_N; cd01667 232721006556 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 232721006557 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 232721006558 active site 232721006559 dimer interface [polypeptide binding]; other site 232721006560 motif 1; other site 232721006561 motif 2; other site 232721006562 motif 3; other site 232721006563 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 232721006564 anticodon binding site; other site 232721006565 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 232721006566 tetramer interface [polypeptide binding]; other site 232721006567 active site 232721006568 Mg2+/Mn2+ binding site [ion binding]; other site 232721006569 EamA-like transporter family; Region: EamA; cl01037 232721006570 EamA-like transporter family; Region: EamA; cl01037 232721006571 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 232721006572 SWIB/MDM2 domain; Region: SWIB; cl02489 232721006573 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 232721006574 Gram-negative bacterial tonB protein; Region: TonB; cl10048 232721006575 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 232721006576 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 232721006577 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 232721006578 Hemin uptake protein hemP; Region: hemP; cl10043 232721006579 Domain of unknown function (DUF336); Region: DUF336; cl01249 232721006580 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 232721006581 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 232721006582 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; cl12011 232721006583 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 232721006584 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721006585 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...; Region: Sigma70_r4; cd06171 232721006586 DNA binding residues [nucleotide binding] 232721006587 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 232721006588 dimer interface [polypeptide binding]; other site 232721006589 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 232721006590 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721006591 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 232721006592 Proline dehydrogenase; Region: Pro_dh; cl03282 232721006593 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 232721006594 NAD(P) binding site [chemical binding]; other site 232721006595 catalytic residues [active] 232721006596 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 232721006597 tetrathionate reductase subunit B; Provisional; Region: PRK14993 232721006598 4Fe-4S binding domain; Region: Fer4; cl02805 232721006599 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 232721006600 tetrathionate reductase subunit A; Provisional; Region: PRK14991 232721006601 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 232721006602 molybdopterin cofactor binding site; other site 232721006603 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 232721006604 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 232721006605 putative molybdopterin cofactor binding site; other site 232721006606 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 232721006607 Superfamily II helicase [General function prediction only]; Region: COG1204 232721006608 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 232721006609 ATP binding site [chemical binding]; other site 232721006610 putative Mg++ binding site [ion binding]; other site 232721006611 Protein of unknown function (DUF3223); Region: DUF3223; pfam11523 232721006612 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 232721006613 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 232721006614 VRR-NUC domain; Region: VRR_NUC; pfam08774 232721006615 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 232721006616 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 232721006617 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 232721006618 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 232721006619 active site 232721006620 phosphorylation site [posttranslational modification] 232721006621 intermolecular recognition site; other site 232721006622 dimerization interface [polypeptide binding]; other site 232721006623 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...; Region: trans_reg_C; cd00383 232721006624 DNA binding site [nucleotide binding] 232721006625 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 232721006626 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721006627 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 trans-...; Region: HisKA; cd00082 232721006628 dimer interface [polypeptide binding]; other site 232721006629 phosphorylation site [posttranslational modification] 232721006630 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 232721006631 ATP binding site [chemical binding]; other site 232721006632 Mg2+ binding site [ion binding]; other site 232721006633 G-X-G motif; other site 232721006634 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 232721006635 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...; Region: TlpA_like_family; cd02966 232721006636 catalytic residues [active] 232721006637 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721006638 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 232721006639 dimerization interface [polypeptide binding]; other site 232721006640 putative DNA binding site [nucleotide binding]; other site 232721006641 putative Zn2+ binding site [ion binding]; other site 232721006642 YeeE/YedE family (DUF395); Region: DUF395; cl01018 232721006643 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 232721006644 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 232721006645 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721006646 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721006647 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 232721006648 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 232721006649 dimer interface [polypeptide binding]; other site 232721006650 active site 232721006651 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721006652 Integrase core domain; Region: rve; cl01316 232721006653 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721006654 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...; Region: AAA; cd00009 232721006655 Walker A motif; other site 232721006656 ATP binding site [chemical binding]; other site 232721006657 Walker B motif; other site 232721006658 Phage-related protein, predicted endonuclease [DNA replication, recombination, and repair]; Region: COG5377 232721006659 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 232721006660 Domain of unknown function (DUF932); Region: DUF932; cl12129 232721006661 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721006662 Domain of unknown function (DUF955); Region: DUF955; cl01076 232721006663 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 232721006664 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 232721006665 Integrase core domain; Region: rve; cl01316 232721006666 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 232721006667 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 232721006668 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 232721006669 UvrD/REP helicase; Region: UvrD-helicase; cl14126 232721006670 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 232721006671 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 232721006672 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 232721006673 putative active site [active] 232721006674 putative metal-binding site [ion binding]; other site 232721006675 integrase; Provisional; Region: PRK09692 232721006676 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 232721006677 active site 232721006678 Int/Topo IB signature motif; other site 232721006679 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 232721006680 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 232721006681 motif II; other site 232721006682 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 232721006683 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 232721006684 S-adenosylmethionine binding site [chemical binding]; other site 232721006685 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 232721006686 ligand binding site [chemical binding]; other site 232721006687 DNA gyrase subunit A; Validated; Region: PRK05560 232721006688 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 in...; Region: TOP4c; cd00187 232721006689 CAP-like domain; other site 232721006690 Active site [active] 232721006691 primary dimer interface [polypeptide binding]; other site 232721006692 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 232721006693 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 232721006694 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 232721006695 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 232721006696 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 232721006697 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 232721006698 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 232721006699 homodimer interface [polypeptide binding]; other site 232721006700 substrate-cofactor binding pocket; other site 232721006701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721006702 catalytic residue [active] 232721006703 Chorismate mutase type II; Region: CM_2; cl00693 232721006704 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 232721006705 Prephenate dehydratase; Region: PDT; pfam00800 232721006706 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 232721006707 putative L-Phe binding site [chemical binding]; other site 232721006708 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 232721006709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721006710 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 232721006711 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 232721006712 hinge; other site 232721006713 active site 232721006714 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 232721006715 CMP-binding site; other site 232721006716 The sites determining sugar specificity; other site 232721006717 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 232721006718 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 232721006719 RNA binding site [nucleotide binding]; other site 232721006720 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 232721006721 RNA binding site [nucleotide binding]; other site 232721006722 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 232721006723 RNA binding site [nucleotide binding]; other site 232721006724 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 232721006725 RNA binding site [nucleotide binding]; other site 232721006726 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 232721006727 RNA binding site [nucleotide binding]; other site 232721006728 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 232721006729 RNA binding site [nucleotide binding]; other site 232721006730 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 232721006731 IHF - DNA interface [nucleotide binding]; other site 232721006732 IHF dimer interface [polypeptide binding]; other site 232721006733 tetratricopeptide repeat protein; Provisional; Region: PRK11788 232721006734 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 232721006735 binding surface 232721006736 TPR motif; other site 232721006737 Protein of unknown function, DUF655; Region: DUF655; cl00648 232721006738 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 232721006739 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 232721006740 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 232721006741 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 232721006742 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 232721006743 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 232721006744 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 232721006745 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 232721006746 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 232721006747 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 232721006748 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 232721006749 5-oxoprolinase; Region: PLN02666 232721006750 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 232721006751 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 232721006752 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_5; cd06232 232721006753 putative active site [active] 232721006754 Zn-binding site [ion binding]; other site 232721006755 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 232721006756 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 232721006757 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 232721006758 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721006759 DctM-like transporters; Region: DctM; pfam06808 232721006760 CrcB-like protein; Region: CRCB; cl09114 232721006761 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 232721006762 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 232721006763 putative substrate translocation pore; other site 232721006764 RmuC family; Region: RmuC; pfam02646 232721006765 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 232721006766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721006767 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721006768 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 232721006769 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. 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...; Region: PncB_like; cd01401 232721006770 active site 232721006771 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...; Region: 4HBT; cd00586 232721006772 active site 232721006773 Phasin protein; Region: Phasin_2; cl11491 232721006774 Peptidase family M23; Region: Peptidase_M23; pfam01551 232721006775 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 232721006776 active site 232721006777 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 232721006778 Sel1 repeat; Region: Sel1; cl02723 232721006779 Predicted permeases [General function prediction only]; Region: RarD; COG2962 232721006780 Staphylococcal nuclease homologues; Region: SNc; smart00318 232721006781 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 232721006782 Catalytic site; other site 232721006783 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 232721006784 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 232721006785 active site 232721006786 MgtC family; Region: MgtC; cl12207 232721006787 OsmC-like protein; Region: OsmC; cl00767 232721006788 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 232721006789 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 232721006790 GTP/Mg2+ binding site [chemical binding]; other site 232721006791 G4 box; other site 232721006792 G5 box; other site 232721006793 G1 box; other site 232721006794 Switch I region; other site 232721006795 G2 box; other site 232721006796 G3 box; other site 232721006797 Switch II region; other site 232721006798 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 232721006799 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721006800 ATP binding site [chemical binding]; other site 232721006801 dimerization interface [polypeptide binding]; other site 232721006802 Metal binding site [ion binding]; metal-binding site 232721006803 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721006804 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 232721006805 ATP binding site [chemical binding]; other site 232721006806 dimerization interface [polypeptide binding]; other site 232721006807 Metal binding site [ion binding]; metal-binding site 232721006808 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 232721006809 putative DNA binding site [nucleotide binding]; other site 232721006810 putative Zn2+ binding site [ion binding]; other site 232721006811 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_20; cd07254 232721006812 putative metal binding site [ion binding]; other site 232721006813 Low molecular weight phosphatase family; Region: LMWPc; cd00115 232721006814 Active site [active] 232721006815 Membrane transport protein; Region: Mem_trans; cl09117 232721006816 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 232721006817 putative substrate translocation pore; other site 232721006818 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 232721006819 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721006820 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 232721006821 substrate binding pocket [chemical binding]; other site 232721006822 dimerization interface [polypeptide binding]; other site 232721006823 thiamine pyrophosphate protein; Validated; Region: PRK08199 232721006824 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 232721006825 PYR/PP interface [polypeptide binding]; other site 232721006826 dimer interface [polypeptide binding]; other site 232721006827 TPP binding site [chemical binding]; other site 232721006828 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 232721006829 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...; Region: TPP_enzymes; cd00568 232721006830 TPP-binding site [chemical binding]; other site 232721006831 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 232721006832 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 232721006833 homodimer interface [polypeptide binding]; other site 232721006834 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 232721006835 NAD binding site [chemical binding]; other site 232721006836 active site 232721006837 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 232721006838 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 232721006839 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 232721006840 active site 232721006841 DNA binding site [nucleotide binding] 232721006842 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 232721006843 DNA binding site [nucleotide binding] 232721006844 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-...; Region: PaeLigD_Pol_like; cd04862 232721006845 nucleotide binding site [chemical binding]; other site 232721006846 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 232721006847 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 232721006848 putative DNA binding site [nucleotide binding]; other site 232721006849 putative homodimer interface [polypeptide binding]; other site 232721006850 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 232721006851 Divergent AAA domain; Region: AAA_4; pfam04326 232721006852 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 232721006853 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721006854 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 232721006855 Walker A/P-loop; other site 232721006856 ATP binding site [chemical binding]; other site 232721006857 T5orf172 domain; Region: T5orf172; pfam10544 232721006858 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 232721006859 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 232721006860 ATP binding site [chemical binding]; other site 232721006861 putative Mg++ binding site [ion binding]; other site 232721006862 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 232721006863 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721006864 Toxin of toxin-antitoxin type 1 system; Region: plasmid_Toxin; pfam12703 232721006865 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 232721006866 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 232721006867 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 232721006868 Replication protein C (RepC); Region: RepC; pfam06504 232721006869 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 232721006870 Walker A motif; other site 232721006871 NTP binding site [chemical binding]; other site 232721006872 hexamer interface [polypeptide binding]; other site 232721006873 Walker B motif; other site 232721006874 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...; Region: Sigma70_r4; cl01055 232721006875 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 232721006876 integrase; Provisional; Region: PRK09692 232721006877 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 232721006878 active site 232721006879 Int/Topo IB signature motif; other site 232721006880 GMP synthase; Reviewed; Region: guaA; PRK00074 232721006881 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 232721006882 AMP/PPi binding site [chemical binding]; other site 232721006883 candidate oxyanion hole; other site 232721006884 catalytic triad [active] 232721006885 potential glutamine specificity residues [chemical binding]; other site 232721006886 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 232721006887 ATP Binding subdomain [chemical binding]; other site 232721006888 Ligand Binding sites [chemical binding]; other site 232721006889 Dimerization subdomain; other site 232721006890 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 232721006891 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 232721006892 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 key...; Region: CBS_pair_IMPDH; cd04601 232721006893 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 the...; Region: IMPDH; cd00381 232721006894 active site 232721006895 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 232721006896 putative coenzyme Q binding site [chemical binding]; other site 232721006897 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 232721006898 SmpB-tmRNA interface; other site 232721006899 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 232721006900 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 232721006901 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721006902 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...; Region: Sigma70_r4; cl01055 232721006903 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 232721006904 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 232721006905 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 232721006906 substrate binding site [chemical binding]; other site 232721006907 oxyanion hole (OAH) forming residues; other site 232721006908 trimer interface [polypeptide binding]; other site 232721006909 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 232721006910 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 232721006911 G1 box; other site 232721006912 putative GEF interaction site [polypeptide binding]; other site 232721006913 GTP/Mg2+ binding site [chemical binding]; other site 232721006914 Switch I region; other site 232721006915 G2 box; other site 232721006916 G3 box; other site 232721006917 Switch II region; other site 232721006918 G4 box; other site 232721006919 G5 box; other site 232721006920 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 232721006921 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...; Region: BipA_TypA_C; cd03710 232721006922 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 232721006923 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 232721006924 RNA binding site [nucleotide binding]; other site 232721006925 active site 232721006926 Ribosome-binding factor A; Region: RBFA; cl00542 232721006927 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 232721006928 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 232721006929 translation initiation factor IF-2; Region: IF-2; TIGR00487 232721006930 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 232721006931 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 232721006932 G1 box; other site 232721006933 putative GEF interaction site [polypeptide binding]; other site 232721006934 GTP/Mg2+ binding site [chemical binding]; other site 232721006935 Switch I region; other site 232721006936 G2 box; other site 232721006937 G3 box; other site 232721006938 Switch II region; other site 232721006939 G4 box; other site 232721006940 G5 box; other site 232721006941 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...; Region: IF2_mtIF2_II; cd03702 232721006942 Translation-initiation factor 2; Region: IF-2; pfam11987 232721006943 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...; Region: mtIF2_IVc; cd03692 232721006944 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 232721006945 NusA N-terminal domain; Region: NusA_N; pfam08529 232721006946 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...; Region: S1_NusA; cd04455 232721006947 RNA binding site [nucleotide binding]; other site 232721006948 homodimer interface [polypeptide binding]; other site 232721006949 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 232721006950 G-X-X-G motif; other site 232721006951 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 232721006952 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 232721006953 ribosome maturation protein RimP; Reviewed; Region: PRK00092 232721006954 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 232721006955 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 232721006956 Sm1 motif; other site 232721006957 D3 - B interaction site; other site 232721006958 D1 - D2 interaction site; other site 232721006959 Hfq - Hfq interaction site; other site 232721006960 RNA binding pocket [nucleotide binding]; other site 232721006961 Sm2 motif; other site 232721006962 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 232721006963 catalytic residues [active] 232721006964 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 232721006965 Cytochrome c; Region: Cytochrom_C; cl11414 232721006966 Cytochrome c; Region: Cytochrom_C; cl11414 232721006967 Cytochrome c; Region: Cytochrom_C; cl11414 232721006968 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 232721006969 classical (c) SDRs; Region: SDR_c; cd05233 232721006970 NAD(P) binding site [chemical binding]; other site 232721006971 active site 232721006972 ribonuclease R; Region: RNase_R; TIGR02063 232721006973 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 232721006974 RNB domain; Region: RNB; pfam00773 232721006975 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 play an...; Region: S1_RNase_R; cd04471 232721006976 RNA binding site [nucleotide binding]; other site 232721006977 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 232721006978 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 232721006979 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 232721006980 RNA/DNA hybrid binding site [nucleotide binding]; other site 232721006981 active site 232721006982 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 232721006983 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 232721006984 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 232721006985 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 232721006986 active site 232721006987 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 232721006988 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 232721006989 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 232721006990 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-2,3-...; Region: LbH_LpxD; cd03352 232721006991 trimer interface [polypeptide binding]; other site 232721006992 active site 232721006993 UDP-GlcNAc binding site [chemical binding]; other site 232721006994 lipid binding site [chemical binding]; lipid-binding site 232721006995 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 232721006996 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 232721006997 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 232721006998 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 232721006999 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 232721007000 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 232721007001 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 232721007002 Surface antigen; Region: Bac_surface_Ag; cl03097 232721007003 zinc metallopeptidase RseP; Provisional; Region: PRK10779 232721007004 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 232721007005 active site 232721007006 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...; Region: PDZ_metalloprotease; cd00989 232721007007 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 232721007008 putative substrate binding region [chemical binding]; other site 232721007009 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 232721007010 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 232721007011 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 232721007012 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 232721007013 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 232721007014 catalytic residue [active] 232721007015 putative FPP diphosphate binding site; other site 232721007016 putative FPP binding hydrophobic cleft; other site 232721007017 dimer interface [polypeptide binding]; other site 232721007018 putative IPP diphosphate binding site; other site 232721007019 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 round of...; Region: RRF; cd00520 232721007020 hinge region; other site 232721007021 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 232721007022 putative nucleotide binding site [chemical binding]; other site 232721007023 uridine monophosphate binding site [chemical binding]; other site 232721007024 homohexameric interface [polypeptide binding]; other site 232721007025 elongation factor Ts; Provisional; Region: tsf; PRK09377 232721007026 Elongation factor TS; Region: EF_TS; pfam00889 232721007027 Elongation factor TS; Region: EF_TS; pfam00889 232721007028 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 232721007029 rRNA interaction site [nucleotide binding]; other site 232721007030 S8 interaction site; other site 232721007031 putative laminin-1 binding site; other site 232721007032 amidase; Provisional; Region: PRK07056 232721007033 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 232721007034 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 232721007035 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 232721007036 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 232721007037 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, 2-...; Region: ribokinase_pfkB_like; cl00192 232721007038 ATP binding site [chemical binding]; other site 232721007039 substrate binding site [chemical binding]; other site 232721007040 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 232721007041 mce related protein; Region: MCE; cl03606 232721007042 Domain of unknown function DUF140; Region: DUF140; cl00510 232721007043 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 232721007044 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 232721007045 DNA binding residues [nucleotide binding] 232721007046 dimer interface [polypeptide binding]; other site 232721007047 putative metal binding site [ion binding]; other site 232721007048 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721007049 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721007050 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; cl11391 232721007051 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 232721007052 Uncharacterized conserved protein [Function unknown]; Region: COG1284 232721007053 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 232721007054 Outer membrane efflux protein; Region: OEP; pfam02321 232721007055 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721007056 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721007057 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 232721007058 Protein of unknown function, DUF; Region: DUF411; cl01142 232721007059 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 232721007060 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721007061 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721007062 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; cl11391 232721007063 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of highly-; Region: nylC_like; cd02252 232721007064 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of highly-; Region: nylC_like; cd02252 232721007065 cleavage site 232721007066 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 232721007067 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 232721007068 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 232721007069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721007070 Walker A/P-loop; other site 232721007071 ATP binding site [chemical binding]; other site 232721007072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721007073 Q-loop/lid; other site 232721007074 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 232721007075 ABC transporter; Region: ABC_tran_2; pfam12848 232721007076 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 232721007077 helicase 45; Provisional; Region: PTZ00424 232721007078 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 232721007079 ATP binding site [chemical binding]; other site 232721007080 Mg++ binding site [ion binding]; other site 232721007081 motif III; other site 232721007082 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 232721007083 nucleotide binding region [chemical binding]; other site 232721007084 ATP-binding site [chemical binding]; other site 232721007085 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 232721007086 active site 232721007087 Zn-binding site [ion binding]; other site 232721007088 Integrase core domain; Region: rve; cl01316 232721007089 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721007090 Integrase core domain; Region: rve; cl01316 232721007091 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 232721007092 putative DNA binding site [nucleotide binding]; other site 232721007093 dimerization interface [polypeptide binding]; other site 232721007094 putative Zn2+ binding site [ion binding]; other site 232721007095 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 232721007096 HsdM N-terminal domain; Region: HsdM_N; pfam12161 232721007097 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; cl12011 232721007098 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 232721007099 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 232721007100 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 232721007101 ATP binding site [chemical binding]; other site 232721007102 putative Mg++ binding site [ion binding]; other site 232721007103 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 232721007104 periplasmic folding chaperone; Provisional; Region: PRK10788 232721007105 PPIC-type PPIASE domain; Region: Rotamase; cl08278 232721007106 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 232721007107 IHF dimer interface [polypeptide binding]; other site 232721007108 IHF - DNA interface [nucleotide binding]; other site 232721007109 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 232721007110 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 232721007111 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 232721007112 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 232721007113 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 232721007114 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 232721007115 Phage integrase family; Region: Phage_integrase; pfam00589 232721007116 DNA binding site [nucleotide binding] 232721007117 Int/Topo IB signature motif; other site 232721007118 active site 232721007119 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 232721007120 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721007121 TIR domain; Region: TIR; cl02060 232721007122 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 232721007123 TIR domain; Region: TIR; cl02060 232721007124 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 232721007125 MPN+ (JAMM) motif; other site 232721007126 Zinc-binding site [ion binding]; other site 232721007127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 232721007128 Domain of unknown function (DUF932); Region: DUF932; cl12129 232721007129 ParB-like nuclease domain; Region: ParBc; cl02129 232721007130 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 232721007131 V-type ATP synthase subunit I; Validated; Region: PRK05771 232721007132 Protein of unknown function (DUF736); Region: DUF736; cl02303 232721007133 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721007134 TniQ; Region: TniQ; pfam06527 232721007135 Bacterial TniB protein; Region: TniB; pfam05621 232721007136 Integrase core domain; Region: rve; cl01316 232721007137 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 232721007138 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 232721007139 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 232721007140 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 232721007141 Replication initiator protein A; Region: RPA; cl02339 232721007142 ParA-like protein; Provisional; Region: PHA02518 232721007143 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...; Region: ParA; cd02042 232721007144 P-loop; other site 232721007145 Magnesium ion binding site [ion binding]; other site 232721007146 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 232721007147 Peptidase S26; Region: Peptidase_S26; pfam10502 232721007148 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cl10465 232721007149 Integrase core domain; Region: rve; cl01316 232721007150 putative transposase OrfB; Reviewed; Region: PHA02517 232721007151 Transposase, Mutator family; Region: Transposase_mut; pfam00872 232721007152 MULE transposase domain; Region: MULE; pfam10551 232721007153 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 232721007154 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 232721007155 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721007156 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721007157 Outer membrane efflux protein; Region: OEP; pfam02321 232721007158 Outer membrane efflux protein; Region: OEP; pfam02321 232721007159 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 232721007160 Acetokinase family; Region: Acetate_kinase; cl01029 232721007161 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 232721007162 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 232721007163 DNA binding residues [nucleotide binding] 232721007164 dimer interface [polypeptide binding]; other site 232721007165 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 232721007166 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 232721007167 S-adenosylmethionine binding site [chemical binding]; other site 232721007168 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 232721007169 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...; Region: TPP_enzymes; cl01629 232721007170 TPP-binding site [chemical binding]; other site 232721007171 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 232721007172 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 232721007173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721007174 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 232721007175 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 232721007176 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 232721007177 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 232721007178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721007179 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; cl12011 232721007180 Transposase domain (DUF772); Region: DUF772; cl12084 232721007181 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721007182 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 232721007183 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 232721007184 protein binding site [polypeptide binding]; other site 232721007185 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 232721007186 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721007187 thymidine phosphorylase; Provisional; Region: PRK04350 232721007188 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 232721007189 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 232721007190 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 232721007191 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 232721007192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721007193 Beta-Casp domain; Region: Beta-Casp; pfam10996 232721007194 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 232721007195 Domain of unknown function (DUF477); Region: DUF477; cl01535 232721007196 Domain of unknown function (DUF477); Region: DUF477; cl01535 232721007197 LemA family; Region: LemA; cl00742 232721007198 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; cl00207 232721007199 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721007200 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721007201 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; cl11391 232721007202 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 232721007203 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 232721007204 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 232721007205 DNA binding residues [nucleotide binding] 232721007206 dimer interface [polypeptide binding]; other site 232721007207 mercury binding site [ion binding]; other site 232721007208 Uncharacterized conserved protein [Function unknown]; Region: COG2308 232721007209 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 232721007210 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 232721007211 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 232721007212 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 232721007213 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 232721007214 Outer membrane efflux protein; Region: OEP; pfam02321 232721007215 Outer membrane efflux protein; Region: OEP; pfam02321 232721007216 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 232721007217 Predicted membrane protein [Function unknown]; Region: COG3174 232721007218 Transposase domain (DUF772); Region: DUF772; cl12084 232721007219 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 232721007220 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 232721007221 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 232721007222 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 232721007223 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; cl11391 232721007224 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 232721007225 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 232721007226 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 232721007227 Copper resistance protein K; Region: CopK; pfam11525 232721007228 Transposase domain (DUF772); Region: DUF772; cl12084 232721007229 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721007230 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 232721007231 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 232721007232 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721007233 Multicopper oxidase; Region: Cu-oxidase; cl14658 232721007234 Outer membrane efflux protein; Region: OEP; pfam02321 232721007235 Outer membrane efflux protein; Region: OEP; pfam02321 232721007236 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 232721007237 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 232721007238 active site 232721007239 phosphorylation site [posttranslational modification] 232721007240 intermolecular recognition site; other site 232721007241 dimerization interface [polypeptide binding]; other site 232721007242 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...; Region: trans_reg_C; cd00383 232721007243 DNA binding site [nucleotide binding] 232721007244 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 232721007245 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721007246 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 trans-...; Region: HisKA; cd00082 232721007247 dimer interface [polypeptide binding]; other site 232721007248 phosphorylation site [posttranslational modification] 232721007249 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 232721007250 ATP binding site [chemical binding]; other site 232721007251 Mg2+ binding site [ion binding]; other site 232721007252 G-X-G motif; other site 232721007253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 232721007254 Integrase core domain; Region: rve; cl01316 232721007255 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 232721007256 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 232721007257 active site 232721007258 HIGH motif; other site 232721007259 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 232721007260 active site 232721007261 KMSKS motif; other site 232721007262 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 232721007263 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 232721007264 homodimer interface [polypeptide binding]; other site 232721007265 substrate-cofactor binding pocket; other site 232721007266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721007267 catalytic residue [active] 232721007268 amidophosphoribosyltransferase; Provisional; Region: PRK09246 232721007269 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 232721007270 active site 232721007271 tetramer interface [polypeptide binding]; other site 232721007272 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721007273 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721007274 Colicin V production protein; Region: Colicin_V; cl00567 232721007275 Sporulation related domain; Region: SPOR; cl10051 232721007276 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 232721007277 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 232721007278 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 232721007279 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 232721007280 putative catalytic residues [active] 232721007281 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 232721007282 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 232721007283 argininosuccinate synthase; Region: argG; TIGR00032 232721007284 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 232721007285 Ligand Binding Site [chemical binding]; other site 232721007286 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 232721007287 Ligand Binding Site [chemical binding]; other site 232721007288 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 232721007289 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 232721007290 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721007291 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...; Region: Sigma70_r4; cl01055 232721007292 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 232721007293 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 232721007294 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721007295 transmembrane helices; other site 232721007296 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 232721007297 FAD binding domain; Region: FAD_binding_4; pfam01565 232721007298 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 232721007299 Protein of unknown function (DUF520); Region: DUF520; cl00723 232721007300 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 232721007301 catalytic motif [active] 232721007302 Catalytic residue [active] 232721007303 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 232721007304 Domain of unknown function (DUF205); Region: DUF205; cl00410 232721007305 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 232721007306 putative deacylase active site [active] 232721007307 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 232721007308 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...; Region: Aldo_ket_red; cd06660 232721007309 active site 232721007310 catalytic tetrad [active] 232721007311 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721007312 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 232721007313 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721007314 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 232721007315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721007316 peptide chain release factor 2; Validated; Region: prfB; PRK00578 232721007317 RF-1 domain; Region: RF-1; cl02875 232721007318 RF-1 domain; Region: RF-1; cl02875 232721007319 aminopeptidase N; Provisional; Region: pepN; PRK14015 232721007320 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 232721007321 active site 232721007322 Zn binding site [ion binding]; other site 232721007323 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-1,7-...; Region: FBPase; cd00354 232721007324 AMP binding site [chemical binding]; other site 232721007325 metal binding site [ion binding]; metal-binding site 232721007326 active site 232721007327 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 232721007328 DNA binding site [nucleotide binding] 232721007329 active site 232721007330 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 232721007331 DNA binding site [nucleotide binding] 232721007332 arginine decarboxylase; Provisional; Region: PRK15029 232721007333 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 232721007334 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 232721007335 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721007336 catalytic residue [active] 232721007337 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 232721007338 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 232721007339 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 232721007340 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 232721007341 catalytic loop [active] 232721007342 iron binding site [ion binding]; other site 232721007343 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 232721007344 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 232721007345 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 232721007346 dimerization interface [polypeptide binding]; other site 232721007347 active site 232721007348 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 232721007349 homopentamer interface [polypeptide binding]; other site 232721007350 active site 232721007351 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 232721007352 putative RNA binding site [nucleotide binding]; other site 232721007353 aspartate aminotransferase; Provisional; Region: PRK07681 232721007354 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 232721007355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721007356 homodimer interface [polypeptide binding]; other site 232721007357 catalytic residue [active] 232721007358 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...; Region: 4HBT; cd00586 232721007359 active site 232721007360 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 232721007361 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 232721007362 TolA protein; Region: tolA_full; TIGR02794 232721007363 metabolite-proton symporter; Region: 2A0106; TIGR00883 232721007364 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 232721007365 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 232721007366 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 232721007367 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 232721007368 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 232721007369 D-pathway; other site 232721007370 Putative ubiquinol binding site [chemical binding]; other site 232721007371 Low-spin heme (heme b) binding site [chemical binding]; other site 232721007372 Putative water exit pathway; other site 232721007373 Binuclear center (heme o3/CuB) [ion binding]; other site 232721007374 K-pathway; other site 232721007375 Putative proton exit pathway; other site 232721007376 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 232721007377 Subunit I/III interface [polypeptide binding]; other site 232721007378 Subunit III/IV interface [polypeptide binding]; other site 232721007379 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 232721007380 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 232721007381 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 232721007382 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 trans-...; Region: HisKA; cd00082 232721007383 dimer interface [polypeptide binding]; other site 232721007384 phosphorylation site [posttranslational modification] 232721007385 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 232721007386 ATP binding site [chemical binding]; other site 232721007387 Mg2+ binding site [ion binding]; other site 232721007388 G-X-G motif; other site 232721007389 Response regulator receiver domain; Region: Response_reg; pfam00072 232721007390 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 232721007391 active site 232721007392 phosphorylation site [posttranslational modification] 232721007393 intermolecular recognition site; other site 232721007394 dimerization interface [polypeptide binding]; other site 232721007395 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 232721007396 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 232721007397 putative protease; Provisional; Region: PRK15452 232721007398 Peptidase family U32; Region: Peptidase_U32; cl03113 232721007399 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 232721007400 non-specific DNA binding site [nucleotide binding]; other site 232721007401 salt bridge; other site 232721007402 sequence-specific DNA binding site [nucleotide binding]; other site 232721007403 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 232721007404 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...; Region: AcnB_Swivel; cd01576 232721007405 substrate binding site [chemical binding]; other site 232721007406 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 232721007407 substrate binding site [chemical binding]; other site 232721007408 ligand binding site [chemical binding]; other site 232721007409 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; cl09155 232721007410 trans-aconitate 2-methyltransferase; Provisional; Region: PRK01683 232721007411 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 232721007412 S-adenosylmethionine binding site [chemical binding]; other site 232721007413 malate dehydrogenase; Provisional; Region: PRK05442 232721007414 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 232721007415 NAD(P) binding site [chemical binding]; other site 232721007416 dimer interface [polypeptide binding]; other site 232721007417 malate binding site [chemical binding]; other site 232721007418 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 232721007419 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721007420 DNA-binding site [nucleotide binding]; DNA binding site 232721007421 UTRA domain; Region: UTRA; cl06649 232721007422 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 232721007423 Iron-sulfur protein interface; other site 232721007424 proximal quinone binding site [chemical binding]; other site 232721007425 SdhD (CybS) interface [polypeptide binding]; other site 232721007426 proximal heme binding site [chemical binding]; other site 232721007427 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 232721007428 SdhC subunit interface [polypeptide binding]; other site 232721007429 proximal heme binding site [chemical binding]; other site 232721007430 cardiolipin binding site; other site 232721007431 Iron-sulfur protein interface; other site 232721007432 proximal quinone binding site [chemical binding]; other site 232721007433 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 232721007434 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721007435 domain; Region: Succ_DH_flav_C; pfam02910 232721007436 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 232721007437 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 232721007438 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 232721007439 dimer interface [polypeptide binding]; other site 232721007440 Citrate synthase; Region: Citrate_synt; pfam00285 232721007441 active site 232721007442 citrylCoA binding site [chemical binding]; other site 232721007443 NADH binding [chemical binding]; other site 232721007444 cationic pore residues; other site 232721007445 oxalacetate/citrate binding site [chemical binding]; other site 232721007446 coenzyme A binding site [chemical binding]; other site 232721007447 catalytic triad [active] 232721007448 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 232721007449 putative metal binding site [ion binding]; other site 232721007450 putative homotetramer interface [polypeptide binding]; other site 232721007451 putative homodimer interface [polypeptide binding]; other site 232721007452 putative homodimer-homodimer interface [polypeptide binding]; other site 232721007453 putative allosteric switch controlling residues; other site 232721007454 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 232721007455 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 232721007456 substrate binding site [chemical binding]; other site 232721007457 catalytic Zn binding site [ion binding]; other site 232721007458 NAD binding site [chemical binding]; other site 232721007459 structural Zn binding site [ion binding]; other site 232721007460 dimer interface [polypeptide binding]; other site 232721007461 Predicted esterase [General function prediction only]; Region: COG0627 232721007462 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721007463 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 232721007464 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 232721007465 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 232721007466 FeS/SAM binding site; other site 232721007467 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 232721007468 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 232721007469 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 232721007470 C-term; Region: GreA_GreB; pfam01272 232721007471 type VII secretion integral membrane protein EccD; Region: T7SS_EccD; TIGR03920 232721007472 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 232721007473 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...; Region: NPD_like; cd04730 232721007474 FMN binding site [chemical binding]; other site 232721007475 substrate binding site [chemical binding]; other site 232721007476 putative catalytic residue [active] 232721007477 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 232721007478 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 232721007479 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721007480 active site 232721007481 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 232721007482 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 232721007483 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 232721007484 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 232721007485 Ligand binding site [chemical binding]; other site 232721007486 Mechanosensitive ion channel; Region: MS_channel; pfam00924 232721007487 enoyl-CoA hydratase; Validated; Region: PRK08139 232721007488 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 232721007489 substrate binding site [chemical binding]; other site 232721007490 oxyanion hole (OAH) forming residues; other site 232721007491 trimer interface [polypeptide binding]; other site 232721007492 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 232721007493 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 232721007494 MoxR-like ATPases [General function prediction only]; Region: COG0714 232721007495 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...; Region: AAA; cd00009 232721007496 Walker A motif; other site 232721007497 ATP binding site [chemical binding]; other site 232721007498 Walker B motif; other site 232721007499 arginine finger; other site 232721007500 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721007501 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 232721007502 Protein of unknown function DUF58; Region: DUF58; pfam01882 232721007503 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 232721007504 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 232721007505 lytic murein transglycosylase; Region: MltB_2; TIGR02283 232721007506 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 catalyze...; Region: LT_GEWL; cd00254 232721007507 N-acetyl-D-glucosamine binding site [chemical binding]; other site 232721007508 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 232721007509 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721007510 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 232721007511 putative dimerization interface [polypeptide binding]; other site 232721007512 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 232721007513 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721007514 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 232721007515 putative ligand binding site [chemical binding]; other site 232721007516 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 232721007517 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa...; Region: ACD_sHsps_p23-like; cd00298 232721007518 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 232721007519 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 232721007520 FtsX-like permease family; Region: FtsX; pfam02687 232721007521 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 232721007522 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 232721007523 Walker A/P-loop; other site 232721007524 ATP binding site [chemical binding]; other site 232721007525 Q-loop/lid; other site 232721007526 ABC transporter signature motif; other site 232721007527 Walker B; other site 232721007528 D-loop; other site 232721007529 H-loop/switch region; other site 232721007530 macrolide transporter subunit MacA; Provisional; Region: PRK11578 232721007531 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 232721007532 NodT family; Region: outer_NodT; TIGR01845 232721007533 Outer membrane efflux protein; Region: OEP; pfam02321 232721007534 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 232721007535 NAD(P) binding site [chemical binding]; other site 232721007536 catalytic residues [active] 232721007537 UGMP family protein; Validated; Region: PRK09604 232721007538 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 232721007539 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721007540 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 232721007541 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; cl09944 232721007542 active site 232721007543 phosphorylation site [posttranslational modification] 232721007544 intermolecular recognition site; other site 232721007545 dimerization interface [polypeptide binding]; other site 232721007546 ANTAR domain; Region: ANTAR; pfam03861 232721007547 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 232721007548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721007549 dimer interface [polypeptide binding]; other site 232721007550 conserved gate region; other site 232721007551 putative PBP binding loops; other site 232721007552 ABC-ATPase subunit interface; other site 232721007553 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 232721007554 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 232721007555 Walker A/P-loop; other site 232721007556 ATP binding site [chemical binding]; other site 232721007557 Q-loop/lid; other site 232721007558 ABC transporter signature motif; other site 232721007559 Walker B; other site 232721007560 D-loop; other site 232721007561 H-loop/switch region; other site 232721007562 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-...; Region: CBS_pair_10; cd04623 232721007563 FOG: CBS domain [General function prediction only]; Region: COG0517 232721007564 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 232721007565 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 232721007566 Protein export membrane protein; Region: SecD_SecF; cl14618 232721007567 Outer membrane efflux protein; Region: OEP; pfam02321 232721007568 Outer membrane efflux protein; Region: OEP; pfam02321 232721007569 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 232721007570 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721007571 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 232721007572 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 232721007573 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 232721007574 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 232721007575 [2Fe-2S] cluster binding site [ion binding]; other site 232721007576 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 oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 232721007577 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 232721007578 [4Fe-4S] binding site [ion binding]; other site 232721007579 molybdopterin cofactor binding site; other site 232721007580 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 oxidation via a membrane-anchored...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 232721007581 molybdopterin cofactor binding site; other site 232721007582 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 232721007583 glycosyl transferase family protein; Provisional; Region: PRK08136 232721007584 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 232721007585 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 232721007586 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...; Region: BFIT_BACH; cd03442 232721007587 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721007588 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 232721007589 putative ligand binding site [chemical binding]; other site 232721007590 Predicted flavoproteins [General function prediction only]; Region: COG2081 232721007591 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721007592 NnrS protein; Region: NnrS; cl01258 232721007593 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 two-...; Region: SirA_YedF_YeeD; cl00436 232721007594 Domain of unknown function DUF59; Region: DUF59; cl00941 232721007595 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 232721007596 trimerization site [polypeptide binding]; other site 232721007597 active site 232721007598 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 232721007599 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 232721007600 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721007601 catalytic residue [active] 232721007602 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 232721007603 FeS assembly ATPase SufC; Region: sufC; TIGR01978 232721007604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721007605 Walker A/P-loop; other site 232721007606 ATP binding site [chemical binding]; other site 232721007607 Q-loop/lid; other site 232721007608 ABC transporter signature motif; other site 232721007609 Walker B; other site 232721007610 D-loop; other site 232721007611 H-loop/switch region; other site 232721007612 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 232721007613 putative ABC transporter; Region: ycf24; CHL00085 232721007614 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721007615 NIPSNAP; Region: NIPSNAP; pfam07978 232721007616 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 232721007617 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 232721007618 GatB domain; Region: GatB_Yqey; cl11497 232721007619 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 232721007620 isocitrate dehydrogenase; Validated; Region: PRK06451 232721007621 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 232721007622 putative metal binding site [ion binding]; other site 232721007623 putative homotetramer interface [polypeptide binding]; other site 232721007624 putative homodimer interface [polypeptide binding]; other site 232721007625 putative homodimer-homodimer interface [polypeptide binding]; other site 232721007626 putative allosteric switch controlling residues; other site 232721007627 Cation efflux family; Region: Cation_efflux; cl00316 232721007628 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 232721007629 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; cl12011 232721007630 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 232721007631 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721007632 Integrase core domain; Region: rve; cl01316 232721007633 Transposase domain (DUF772); Region: DUF772; cl12084 232721007634 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721007635 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 232721007636 Protein of unknown function DUF45; Region: DUF45; cl00636 232721007637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721007638 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 232721007639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721007640 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 232721007641 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 232721007642 active site 232721007643 catalytic residues [active] 232721007644 metal binding site [ion binding]; metal-binding site 232721007645 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721007646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721007647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721007648 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 232721007649 putative dimerization interface [polypeptide binding]; other site 232721007650 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 232721007651 elongation factor P; Validated; Region: PRK00529 232721007652 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 232721007653 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 232721007654 RNA binding site [nucleotide binding]; other site 232721007655 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 232721007656 RNA binding site [nucleotide binding]; other site 232721007657 Sodium:solute symporter family; Region: SSF; cl00456 232721007658 Sodium:solute symporter family; Region: SSF; cl00456 232721007659 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 232721007660 phosphoenolpyruvate synthase; Validated; Region: PRK06464 232721007661 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 232721007662 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 232721007663 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; cl09155 232721007664 Domain of unknown function (DUF299); Region: DUF299; cl00780 232721007665 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 232721007666 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the...; Region: AhpF_NTD_N; cd02974 232721007667 catalytic residue [active] 232721007668 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 232721007669 catalytic residues [active] 232721007670 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721007671 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 232721007672 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...; Region: PRX_Typ2cys; cd03015 232721007673 dimer interface [polypeptide binding]; other site 232721007674 decamer (pentamer of dimers) interface [polypeptide binding]; other site 232721007675 catalytic triad [active] 232721007676 peroxidatic and resolving cysteines [active] 232721007677 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 232721007678 Ferritin-like domain; Region: Ferritin; pfam00210 232721007679 heme binding site [chemical binding]; other site 232721007680 ferroxidase pore; other site 232721007681 ferroxidase diiron center [ion binding]; other site 232721007682 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 232721007683 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 232721007684 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 232721007685 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 232721007686 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 232721007687 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 232721007688 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 232721007689 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 232721007690 domain interfaces; other site 232721007691 active site 232721007692 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 232721007693 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...; Region: HemD; cd06578 232721007694 active site 232721007695 HemX; Region: HemX; cl14667 232721007696 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 232721007697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 232721007698 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721007699 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721007700 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 232721007701 Zn binding site [ion binding]; other site 232721007702 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 232721007703 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 232721007704 HIGH motif; other site 232721007705 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 232721007706 active site 232721007707 KMSKS motif; other site 232721007708 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 232721007709 tRNA binding surface [nucleotide binding]; other site 232721007710 anticodon binding site; other site 232721007711 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 232721007712 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 232721007713 active site 232721007714 tetramer interface [polypeptide binding]; other site 232721007715 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 two-...; Region: SirA_YedF_YeeD; cd00291 232721007716 CPxP motif; other site 232721007717 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...; Region: Nudix_Hydrolase; cl00447 232721007718 nudix motif; other site 232721007719 cysteine synthases; Region: cysKM; TIGR01136 232721007720 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 232721007721 dimer interface [polypeptide binding]; other site 232721007722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721007723 catalytic residue [active] 232721007724 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 232721007725 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 232721007726 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 232721007727 VirB7 interaction site; other site 232721007728 VirB8 protein; Region: VirB8; cl01500 232721007729 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 232721007730 conjugal transfer protein TrbL; Provisional; Region: PRK13875 232721007731 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 232721007732 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 232721007733 VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 232721007734 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 232721007735 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 232721007736 TrbC/VIRB2 family; Region: TrbC; cl01583 232721007737 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 232721007738 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...; Region: VirB11-like_ATPase; cd01130 232721007739 ATP binding site [chemical binding]; other site 232721007740 Walker A motif; other site 232721007741 hexamer interface [polypeptide binding]; other site 232721007742 Walker B motif; other site 232721007743 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 232721007744 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA...; Region: TraG_VirD4; cd01126 232721007745 Walker A motif; other site 232721007746 ATP binding site [chemical binding]; other site 232721007747 Walker B motif; other site 232721007748 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 232721007749 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 232721007750 Integrase core domain; Region: rve; cl01316 232721007751 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 232721007752 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 232721007753 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 232721007754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721007755 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 232721007756 dimerization interface [polypeptide binding]; other site 232721007757 substrate binding pocket [chemical binding]; other site 232721007758 Domain of Unknown Function with PDB structure; Region: DUF3861; pfam12977 232721007759 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 232721007760 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 232721007761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 232721007762 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721007763 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721007764 NodT family; Region: outer_NodT; TIGR01845 232721007765 Outer membrane efflux protein; Region: OEP; pfam02321 232721007766 Outer membrane efflux protein; Region: OEP; pfam02321 232721007767 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 232721007768 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721007769 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721007770 Transposase domain (DUF772); Region: DUF772; cl12084 232721007771 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721007772 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cl10465 232721007773 Peptidase S26; Region: Peptidase_S26; pfam10502 232721007774 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 232721007775 ParA-like protein; Provisional; Region: PHA02518 232721007776 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...; Region: ParA; cd02042 232721007777 P-loop; other site 232721007778 Magnesium ion binding site [ion binding]; other site 232721007779 Replication initiator protein A; Region: RPA; cl02339 232721007780 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 232721007781 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 232721007782 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721007783 Protein of unknown function (DUF736); Region: DUF736; cl02303 232721007784 ParB-like nuclease domain; Region: ParBc; cl02129 232721007785 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 232721007786 Domain of unknown function (DUF932); Region: DUF932; cl12129 232721007787 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 232721007788 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...; Region: ParA; cd02042 232721007789 P-loop; other site 232721007790 Magnesium ion binding site [ion binding]; other site 232721007791 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; cl14056 232721007792 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 232721007793 Active Sites [active] 232721007794 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 232721007795 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 232721007796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721007797 Walker A/P-loop; other site 232721007798 ATP binding site [chemical binding]; other site 232721007799 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721007800 ABC transporter signature motif; other site 232721007801 Walker B; other site 232721007802 D-loop; other site 232721007803 H-loop/switch region; other site 232721007804 AAA-like domain; Region: AAA_10; pfam12846 232721007805 Domain of unknown function DUF87; Region: DUF87; pfam01935 232721007806 Transposase domain (DUF772); Region: DUF772; cl12084 232721007807 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721007808 DGQHR domain; Region: DGQHR; cl14002 232721007809 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721007810 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 232721007811 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 232721007812 Phage integrase family; Region: Phage_integrase; pfam00589 232721007813 DNA binding site [nucleotide binding] 232721007814 Int/Topo IB signature motif; other site 232721007815 active site 232721007816 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 232721007817 rRNA binding site [nucleotide binding]; other site 232721007818 predicted 30S ribosome binding site; other site 232721007819 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 232721007820 RNA/DNA binding site [nucleotide binding]; other site 232721007821 RRM dimerization site [polypeptide binding]; other site 232721007822 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 232721007823 short chain dehydrogenase; Provisional; Region: PRK06101 232721007824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721007825 NAD(P) binding site [chemical binding]; other site 232721007826 active site 232721007827 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 232721007828 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 232721007829 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 232721007830 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721007831 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 232721007832 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; cl12011 232721007833 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 232721007834 S-adenosylmethionine binding site [chemical binding]; other site 232721007835 Protein of unknown function (DUF1365); Region: DUF1365; cl01388 232721007836 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 232721007837 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721007838 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 232721007839 DNA binding residues [nucleotide binding] 232721007840 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 232721007841 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 232721007842 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 232721007843 LrgA family; Region: LrgA; cl00608 232721007844 LrgB-like family; Region: LrgB; cl00596 232721007845 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 232721007846 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721007847 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 232721007848 dimerization interface [polypeptide binding]; other site 232721007849 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 232721007850 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721007851 FAD binding site [chemical binding]; other site 232721007852 substrate binding pocket [chemical binding]; other site 232721007853 catalytic base [active] 232721007854 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721007855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721007856 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 232721007857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 232721007858 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721007859 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721007860 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 232721007861 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 232721007862 putative NAD(P) binding site [chemical binding]; other site 232721007863 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 232721007864 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 232721007865 catalytic loop [active] 232721007866 iron binding site [ion binding]; other site 232721007867 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...; Region: flavin_oxioreductase; cd06189 232721007868 FAD binding pocket [chemical binding]; other site 232721007869 FAD binding motif [chemical binding]; other site 232721007870 phosphate binding motif [ion binding]; other site 232721007871 beta-alpha-beta structure motif; other site 232721007872 NAD binding pocket [chemical binding]; other site 232721007873 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 232721007874 dimerization interface [polypeptide binding]; other site 232721007875 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 232721007876 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 232721007877 catalytic center binding site [active] 232721007878 ATP binding site [chemical binding]; other site 232721007879 poly(A) polymerase; Region: pcnB; TIGR01942 232721007880 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 232721007881 active site 232721007882 NTP binding site [chemical binding]; other site 232721007883 metal binding triad [ion binding]; metal-binding site 232721007884 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 232721007885 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 232721007886 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; cl11391 232721007887 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 232721007888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721007889 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 232721007890 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...; Region: PurM; cd02196 232721007891 dimerization interface [polypeptide binding]; other site 232721007892 putative ATP binding site [chemical binding]; other site 232721007893 Domain of unknown function DUF20; Region: UPF0118; cl00465 232721007894 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 232721007895 Ligand Binding Site [chemical binding]; other site 232721007896 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 232721007897 Uncharacterized conserved protein [Function unknown]; Region: COG2912 232721007898 hypothetical protein; Provisional; Region: PRK10941 232721007899 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 232721007900 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 232721007901 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 232721007902 acetylornithine aminotransferase; Provisional; Region: PRK02627 232721007903 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 232721007904 inhibitor-cofactor binding pocket; inhibition site 232721007905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721007906 catalytic residue [active] 232721007907 ornithine carbamoyltransferase; Provisional; Region: PRK00779 232721007908 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 232721007909 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 232721007910 Flagellin N-methylase; Region: FliB; cl00497 232721007911 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721007912 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 232721007913 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 232721007914 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 232721007915 Chain length determinant protein; Region: Wzz; cl01623 232721007916 Chain length determinant protein; Region: Wzz; cl01623 232721007917 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721007918 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 232721007919 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 232721007920 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 232721007921 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 232721007922 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 232721007923 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 232721007924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721007925 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 232721007926 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 232721007927 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 232721007928 putative trimer interface [polypeptide binding]; other site 232721007929 putative active site [active] 232721007930 putative substrate binding site [chemical binding]; other site 232721007931 putative CoA binding site [chemical binding]; other site 232721007932 FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 232721007933 putative active site [active] 232721007934 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 232721007935 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 232721007936 inhibitor-cofactor binding pocket; inhibition site 232721007937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721007938 catalytic residue [active] 232721007939 Divergent AAA domain; Region: AAA_4; pfam04326 232721007940 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 232721007941 putative active site [active] 232721007942 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 232721007943 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 232721007944 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 232721007945 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 232721007946 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 232721007947 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 232721007948 NAD(P) binding site [chemical binding]; other site 232721007949 homodimer interface [polypeptide binding]; other site 232721007950 substrate binding site [chemical binding]; other site 232721007951 active site 232721007952 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 232721007953 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 232721007954 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 232721007955 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 232721007956 putative NAD(P) binding site [chemical binding]; other site 232721007957 active site 232721007958 putative substrate binding site [chemical binding]; other site 232721007959 Cupin domain; Region: Cupin_2; cl09118 232721007960 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 232721007961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721007962 Walker A/P-loop; other site 232721007963 ATP binding site [chemical binding]; other site 232721007964 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 232721007965 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 232721007966 active site 232721007967 homodimer interface [polypeptide binding]; other site 232721007968 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 232721007969 Bacterial sugar transferase; Region: Bac_transf; cl00939 232721007970 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 232721007971 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 232721007972 putative trimer interface [polypeptide binding]; other site 232721007973 putative CoA binding site [chemical binding]; other site 232721007974 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 232721007975 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 232721007976 inhibitor-cofactor binding pocket; inhibition site 232721007977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721007978 catalytic residue [active] 232721007979 O-Antigen ligase; Region: Wzy_C; cl04850 232721007980 Uncharacterized conserved protein [Function unknown]; Region: COG1739 232721007981 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 232721007982 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 232721007983 hypothetical protein; Provisional; Region: PRK01254 232721007984 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 232721007985 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 232721007986 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...; Region: LuxR_C_like; cl10457 232721007987 T5orf172 domain; Region: T5orf172; pfam10544 232721007988 Transposase; Region: HTH_Tnp_IS630; pfam01710 232721007989 putative transposase OrfB; Reviewed; Region: PHA02517 232721007990 Integrase core domain; Region: rve; cl01316 232721007991 transposase/IS protein; Provisional; Region: PRK09183 232721007992 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...; Region: AAA; cd00009 232721007993 Walker A motif; other site 232721007994 ATP binding site [chemical binding]; other site 232721007995 Walker B motif; other site 232721007996 arginine finger; other site 232721007997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721007998 Integrase core domain; Region: rve; cl01316 232721007999 Low molecular weight phosphatase family; Region: LMWPc; cd00115 232721008000 Active site [active] 232721008001 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 232721008002 putative DNA binding site [nucleotide binding]; other site 232721008003 putative Zn2+ binding site [ion binding]; other site 232721008004 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 232721008005 putative acyl-acceptor binding pocket; other site 232721008006 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 232721008007 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 232721008008 Walker A/P-loop; other site 232721008009 ATP binding site [chemical binding]; other site 232721008010 Q-loop/lid; other site 232721008011 ABC transporter signature motif; other site 232721008012 Walker B; other site 232721008013 D-loop; other site 232721008014 H-loop/switch region; other site 232721008015 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 232721008016 Fatty acid desaturase; Region: FA_desaturase; pfam00487 232721008017 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 232721008018 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 232721008019 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 232721008020 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 232721008021 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 232721008022 putative active site [active] 232721008023 putative metal binding site [ion binding]; other site 232721008024 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 232721008025 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 232721008026 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 232721008027 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 232721008028 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 232721008029 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 232721008030 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 232721008031 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 232721008032 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 232721008033 active site 232721008034 metal binding site [ion binding]; metal-binding site 232721008035 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 232721008036 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 232721008037 Cytochrome P450; Region: p450; cl12078 232721008038 acyl-CoA synthetase; Validated; Region: PRK09192 232721008039 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721008040 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721008041 Phosphopantetheine attachment site; Region: PP-binding; cl09936 232721008042 acyl-CoA synthetase; Validated; Region: PRK09192 232721008043 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721008044 Phosphopantetheine attachment site; Region: PP-binding; cl09936 232721008045 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 232721008046 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 232721008047 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721008048 catalytic residue [active] 232721008049 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 232721008050 Protein of unknown function (DUF1022); Region: DUF1022; pfam06258 232721008051 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 232721008052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721008053 NAD(P) binding site [chemical binding]; other site 232721008054 active site 232721008055 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 232721008056 nucleoside/Zn binding site; other site 232721008057 dimer interface [polypeptide binding]; other site 232721008058 catalytic motif [active] 232721008059 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721008060 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...; Region: AAA; cd00009 232721008061 Walker A motif; other site 232721008062 ATP binding site [chemical binding]; other site 232721008063 Walker B motif; other site 232721008064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721008065 Integrase core domain; Region: rve; cl01316 232721008066 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721008067 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721008068 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721008069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721008070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008071 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 232721008072 substrate binding pocket [chemical binding]; other site 232721008073 dimerization interface [polypeptide binding]; other site 232721008074 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 232721008075 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 232721008076 catalytic loop [active] 232721008077 iron binding site [ion binding]; other site 232721008078 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 232721008079 FAD binding pocket [chemical binding]; other site 232721008080 FAD binding motif [chemical binding]; other site 232721008081 phosphate binding motif [ion binding]; other site 232721008082 beta-alpha-beta structure motif; other site 232721008083 NAD binding pocket [chemical binding]; other site 232721008084 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)...; Region: Rieske; cl00938 232721008085 iron-sulfur cluster [ion binding]; other site 232721008086 [2Fe-2S] cluster binding site [ion binding]; other site 232721008087 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise...; Region: Rieske_RO_ferredoxin; cd03528 232721008088 [2Fe-2S] cluster binding site [ion binding]; other site 232721008089 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)...; Region: Rieske; cl00938 232721008090 iron-sulfur cluster [ion binding]; other site 232721008091 [2Fe-2S] cluster binding site [ion binding]; other site 232721008092 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 232721008093 beta subunit interface [polypeptide binding]; other site 232721008094 alpha subunit interface [polypeptide binding]; other site 232721008095 active site 232721008096 substrate binding site [chemical binding]; other site 232721008097 Fe binding site [ion binding]; other site 232721008098 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 232721008099 inter-subunit interface; other site 232721008100 Transposase domain (DUF772); Region: DUF772; cl12084 232721008101 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721008102 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721008103 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...; Region: AAA; cd00009 232721008104 Walker A motif; other site 232721008105 ATP binding site [chemical binding]; other site 232721008106 Walker B motif; other site 232721008107 arginine finger; other site 232721008108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721008109 Integrase core domain; Region: rve; cl01316 232721008110 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 232721008111 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 232721008112 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 232721008113 Walker A/P-loop; other site 232721008114 ATP binding site [chemical binding]; other site 232721008115 Q-loop/lid; other site 232721008116 ABC transporter signature motif; other site 232721008117 Walker B; other site 232721008118 D-loop; other site 232721008119 H-loop/switch region; other site 232721008120 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 232721008121 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 232721008122 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; cl00159 232721008123 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 232721008124 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 232721008125 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 232721008126 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 232721008127 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 232721008128 PAS fold; Region: PAS_7; pfam12860 232721008129 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 232721008130 putative active site [active] 232721008131 heme pocket [chemical binding]; other site 232721008132 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721008133 metal binding site [ion binding]; metal-binding site 232721008134 active site 232721008135 I-site; other site 232721008136 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 232721008137 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008138 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 232721008139 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain...; Region: CBS_pair_GGDEF_assoc; cd04598 232721008140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721008141 metal binding site [ion binding]; metal-binding site 232721008142 active site 232721008143 I-site; other site 232721008144 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life...; Region: HINT_subgroup; cd01277 232721008145 HIT family signature motif; other site 232721008146 catalytic residue [active] 232721008147 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 232721008148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721008149 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 232721008150 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 232721008151 putative substrate translocation pore; other site 232721008152 IPP transferase; Region: IPPT; cl00403 232721008153 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 232721008154 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 232721008155 Walker A/P-loop; other site 232721008156 ATP binding site [chemical binding]; other site 232721008157 Q-loop/lid; other site 232721008158 ABC transporter signature motif; other site 232721008159 Walker B; other site 232721008160 D-loop; other site 232721008161 H-loop/switch region; other site 232721008162 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 232721008163 putative dimer interface [polypeptide binding]; other site 232721008164 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 232721008165 FtsX-like permease family; Region: FtsX; pfam02687 232721008166 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 232721008167 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 232721008168 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721008169 catalytic residue [active] 232721008170 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 232721008171 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 232721008172 TM-ABC transporter signature motif; other site 232721008173 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 232721008174 TM-ABC transporter signature motif; other site 232721008175 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721008176 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 232721008177 putative ligand binding site [chemical binding]; other site 232721008178 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721008179 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 232721008180 putative ligand binding site [chemical binding]; other site 232721008181 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 232721008182 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 232721008183 Walker A/P-loop; other site 232721008184 ATP binding site [chemical binding]; other site 232721008185 Q-loop/lid; other site 232721008186 ABC transporter signature motif; other site 232721008187 Walker B; other site 232721008188 D-loop; other site 232721008189 H-loop/switch region; other site 232721008190 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 232721008191 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 232721008192 Walker A/P-loop; other site 232721008193 ATP binding site [chemical binding]; other site 232721008194 Q-loop/lid; other site 232721008195 ABC transporter signature motif; other site 232721008196 Walker B; other site 232721008197 D-loop; other site 232721008198 H-loop/switch region; other site 232721008199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008200 TOBE domain; Region: TOBE_2; cl01440 232721008201 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 232721008202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721008203 putative PBP binding loops; other site 232721008204 dimer interface [polypeptide binding]; other site 232721008205 ABC-ATPase subunit interface; other site 232721008206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721008207 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 232721008208 Walker A/P-loop; other site 232721008209 ATP binding site [chemical binding]; other site 232721008210 Q-loop/lid; other site 232721008211 ABC transporter signature motif; other site 232721008212 Walker B; other site 232721008213 D-loop; other site 232721008214 H-loop/switch region; other site 232721008215 TOBE domain; Region: TOBE_2; cl01440 232721008216 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 232721008217 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 232721008218 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 232721008219 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 232721008220 Walker A/P-loop; other site 232721008221 ATP binding site [chemical binding]; other site 232721008222 Q-loop/lid; other site 232721008223 ABC transporter signature motif; other site 232721008224 Walker B; other site 232721008225 D-loop; other site 232721008226 H-loop/switch region; other site 232721008227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 232721008228 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008229 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 232721008230 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721008231 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721008232 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 232721008233 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 232721008234 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 232721008235 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 232721008236 acyl-CoA synthetase; Validated; Region: PRK08162 232721008237 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721008238 DNA primase, catalytic core; Region: dnaG; TIGR01391 232721008239 CHC2 zinc finger; Region: zf-CHC2; cl02597 232721008240 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 232721008241 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 232721008242 active site 232721008243 metal binding site [ion binding]; metal-binding site 232721008244 interdomain interaction site; other site 232721008245 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 232721008246 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 232721008247 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 232721008248 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 232721008249 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 232721008250 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 232721008251 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721008252 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 232721008253 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...; Region: Sigma70_r4; cd06171 232721008254 DNA binding residues [nucleotide binding] 232721008255 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 232721008256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721008257 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 232721008258 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 232721008259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721008260 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 232721008261 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721008262 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 232721008263 active site 232721008264 catalytic residues [active] 232721008265 metal binding site [ion binding]; metal-binding site 232721008266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721008267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008268 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 232721008269 putative dimerization interface [polypeptide binding]; other site 232721008270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008271 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 232721008272 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 232721008273 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 232721008274 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 232721008275 FeS/SAM binding site; other site 232721008276 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 232721008277 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 232721008278 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 232721008279 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 232721008280 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 232721008281 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 232721008282 synthetase active site [active] 232721008283 NTP binding site [chemical binding]; other site 232721008284 metal binding site [ion binding]; metal-binding site 232721008285 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...; Region: TGS_RelA_SpoT; cd01668 232721008286 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 232721008287 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 232721008288 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 232721008289 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 232721008290 NAD binding site [chemical binding]; other site 232721008291 homotetramer interface [polypeptide binding]; other site 232721008292 homodimer interface [polypeptide binding]; other site 232721008293 substrate binding site [chemical binding]; other site 232721008294 active site 232721008295 Protein of unknown function (DUF541); Region: SIMPL; cl01077 232721008296 osmolarity response regulator; Provisional; Region: ompR; PRK09468 232721008297 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 232721008298 active site 232721008299 phosphorylation site [posttranslational modification] 232721008300 intermolecular recognition site; other site 232721008301 dimerization interface [polypeptide binding]; other site 232721008302 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...; Region: trans_reg_C; cd00383 232721008303 DNA binding site [nucleotide binding] 232721008304 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 232721008305 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721008306 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 trans-...; Region: HisKA; cl00080 232721008307 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 232721008308 ATP binding site [chemical binding]; other site 232721008309 Mg2+ binding site [ion binding]; other site 232721008310 G-X-G motif; other site 232721008311 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...; Region: MECDP_synthase; cd00554 232721008312 homotrimer interaction site [polypeptide binding]; other site 232721008313 zinc binding site [ion binding]; other site 232721008314 CDP-binding sites; other site 232721008315 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 232721008316 substrate binding site [chemical binding]; other site 232721008317 dimer interface [polypeptide binding]; other site 232721008318 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 232721008319 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 232721008320 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 232721008321 ATP binding site [chemical binding]; other site 232721008322 putative Mg++ binding site [ion binding]; other site 232721008323 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 232721008324 nucleotide binding region [chemical binding]; other site 232721008325 ATP-binding site [chemical binding]; other site 232721008326 TRCF domain; Region: TRCF; pfam03461 232721008327 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 232721008328 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; cl11391 232721008329 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 232721008330 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 232721008331 LysE type translocator; Region: LysE; cl00565 232721008332 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 232721008333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008334 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 232721008335 dimerization interface [polypeptide binding]; other site 232721008336 Predicted transcriptional regulator [Transcription]; Region: COG1959 232721008337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008338 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 232721008339 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 232721008340 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 232721008341 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 232721008342 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 232721008343 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 232721008344 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...; Region: Aldo_ket_red; cd06660 232721008345 active site 232721008346 catalytic tetrad [active] 232721008347 SlyX; Region: SlyX; cl01090 232721008348 aspartate aminotransferase; Provisional; Region: PRK08361 232721008349 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 232721008350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721008351 homodimer interface [polypeptide binding]; other site 232721008352 catalytic residue [active] 232721008353 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 232721008354 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 232721008355 minor groove reading motif; other site 232721008356 helix-hairpin-helix signature motif; other site 232721008357 substrate binding pocket [chemical binding]; other site 232721008358 active site 232721008359 FES domain; Region: FES; smart00525 232721008360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5298 232721008361 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 232721008362 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 232721008363 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 232721008364 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 232721008365 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 232721008366 putative dimer interface [polypeptide binding]; other site 232721008367 active site pocket [active] 232721008368 putative cataytic base [active] 232721008369 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(; Region: BluB; cd02145 232721008370 putative FMN binding site [chemical binding]; other site 232721008371 cobyric acid synthase; Provisional; Region: PRK00784 232721008372 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721008373 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 232721008374 catalytic triad [active] 232721008375 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 232721008376 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 232721008377 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721008378 catalytic residue [active] 232721008379 CobD/Cbib protein; Region: CobD_Cbib; cl00561 232721008380 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 232721008381 Type II transport protein GspH; Region: GspH; pfam12019 232721008382 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 232721008383 Type II transport protein GspH; Region: GspH; pfam12019 232721008384 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 232721008385 Transposase domain (DUF772); Region: DUF772; cl12084 232721008386 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721008387 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 232721008388 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 232721008389 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 232721008390 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 232721008391 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 232721008392 catalytic motif [active] 232721008393 Zn binding site [ion binding]; other site 232721008394 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 5,10-...; Region: DHFR; cl00161 232721008395 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 232721008396 putative active site [active] 232721008397 catalytic site [active] 232721008398 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 232721008399 putative active site [active] 232721008400 catalytic site [active] 232721008401 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 232721008402 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...; Region: DUS_like_FMN; cd02801 232721008403 FMN binding site [chemical binding]; other site 232721008404 active site 232721008405 catalytic residues [active] 232721008406 substrate binding site [chemical binding]; other site 232721008407 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; cl12011 232721008408 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 232721008409 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 232721008410 Coenzyme A binding pocket [chemical binding]; other site 232721008411 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721008412 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 232721008413 NAD(P) binding site [chemical binding]; other site 232721008414 catalytic residues [active] 232721008415 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 232721008416 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 232721008417 Clp amino terminal domain; Region: Clp_N; pfam02861 232721008418 Clp amino terminal domain; Region: Clp_N; pfam02861 232721008419 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...; Region: AAA; cd00009 232721008420 Walker A motif; other site 232721008421 ATP binding site [chemical binding]; other site 232721008422 Walker B motif; other site 232721008423 arginine finger; other site 232721008424 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...; Region: AAA; cd00009 232721008425 Walker A motif; other site 232721008426 ATP binding site [chemical binding]; other site 232721008427 Walker B motif; other site 232721008428 arginine finger; other site 232721008429 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 232721008430 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 232721008431 MoaE homodimer interface [polypeptide binding]; other site 232721008432 MoaD interaction [polypeptide binding]; other site 232721008433 active site residues [active] 232721008434 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 232721008435 MoaE interaction surface [polypeptide binding]; other site 232721008436 MoeB interaction surface [polypeptide binding]; other site 232721008437 thiocarboxylated glycine; other site 232721008438 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 232721008439 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 232721008440 dimer interface [polypeptide binding]; other site 232721008441 putative functional site; other site 232721008442 putative MPT binding site; other site 232721008443 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 232721008444 Walker A motif; other site 232721008445 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 232721008446 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 232721008447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721008448 catalytic residue [active] 232721008449 homoserine dehydrogenase; Provisional; Region: PRK06349 232721008450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721008451 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 232721008452 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 232721008453 alanine aminotransferase; Provisional; Region: PTZ00377 232721008454 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 232721008455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721008456 homodimer interface [polypeptide binding]; other site 232721008457 catalytic residue [active] 232721008458 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 232721008459 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...; Region: PRX_BCP; cd03017 232721008460 catalytic triad [active] 232721008461 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 232721008462 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 232721008463 putative active site [active] 232721008464 PhoH-like protein; Region: PhoH; cl12134 232721008465 replicative DNA helicase; Region: DnaB; TIGR00665 232721008466 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 232721008467 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 232721008468 Walker A motif; other site 232721008469 ATP binding site [chemical binding]; other site 232721008470 Walker B motif; other site 232721008471 DNA binding loops [nucleotide binding] 232721008472 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 232721008473 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 232721008474 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 232721008475 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 232721008476 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 232721008477 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 232721008478 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 232721008479 dimer interface [polypeptide binding]; other site 232721008480 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 232721008481 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 232721008482 chaperone protein DnaJ; Provisional; Region: PRK10767 232721008483 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...; Region: DnaJ; cd06257 232721008484 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 232721008485 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 232721008486 Peptidase family U32; Region: Peptidase_U32; cl03113 232721008487 Peptidase family U32; Region: Peptidase_U32; cl03113 232721008488 SCP-2 sterol transfer family; Region: SCP2; cl01225 232721008489 DGC domain; Region: DGC; cl01742 232721008490 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 232721008491 Flavoprotein; Region: Flavoprotein; cl08021 232721008492 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 232721008493 Cytochrome P450; Region: p450; cl12078 232721008494 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 232721008495 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721008496 Beta-Casp domain; Region: Beta-Casp; pfam10996 232721008497 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 232721008498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721008499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008500 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 232721008501 putative dimerization interface [polypeptide binding]; other site 232721008502 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 232721008503 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 232721008504 substrate binding site [chemical binding]; other site 232721008505 ligand binding site [chemical binding]; other site 232721008506 Entericidin EcnA/B family; Region: Entericidin; cl02322 232721008507 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 3-...; Region: IPMI_Swivel; cd01577 232721008508 substrate binding site [chemical binding]; other site 232721008509 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 232721008510 isocitrate dehydrogenase; Validated; Region: PRK06451 232721008511 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 232721008512 classical (c) SDRs; Region: SDR_c; cd05233 232721008513 NAD(P) binding site [chemical binding]; other site 232721008514 active site 232721008515 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 232721008516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721008517 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 232721008518 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 232721008519 FimV N-terminal domain; Region: FimV_core; TIGR03505 232721008520 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 232721008521 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 232721008522 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 232721008523 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 232721008524 dimerization interface 3.5A [polypeptide binding]; other site 232721008525 active site 232721008526 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 monomeric...; Region: PRAI; cd00405 232721008527 active site 232721008528 tryptophan synthase, beta chain; Region: PLN02618 232721008529 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 232721008530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721008531 catalytic residue [active] 232721008532 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 232721008533 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...; Region: Tryptophan_synthase_alpha; cd04724 232721008534 substrate binding site [chemical binding]; other site 232721008535 active site 232721008536 catalytic residues [active] 232721008537 heterodimer interface [polypeptide binding]; other site 232721008538 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 232721008539 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 232721008540 YGGT family; Region: YGGT; cl00508 232721008541 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 232721008542 Found in ATP-dependent protease La (LON); Region: LON; cl01056 232721008543 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 232721008544 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 232721008545 putative ADP-binding pocket [chemical binding]; other site 232721008546 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 232721008547 Bacterial sugar transferase; Region: Bac_transf; cl00939 232721008548 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; cl12011 232721008549 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 232721008550 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 232721008551 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 232721008552 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 232721008553 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-...; Region: LysRS_N; cd04322 232721008554 dimer interface [polypeptide binding]; other site 232721008555 putative anticodon binding site; other site 232721008556 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 232721008557 motif 1; other site 232721008558 active site 232721008559 motif 2; other site 232721008560 motif 3; other site 232721008561 Response regulator receiver domain; Region: Response_reg; pfam00072 232721008562 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 232721008563 active site 232721008564 phosphorylation site [posttranslational modification] 232721008565 intermolecular recognition site; other site 232721008566 dimerization interface [polypeptide binding]; other site 232721008567 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721008568 metal binding site [ion binding]; metal-binding site 232721008569 active site 232721008570 I-site; other site 232721008571 Mechanosensitive ion channel; Region: MS_channel; pfam00924 232721008572 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721008573 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 232721008574 dimerization interface [polypeptide binding]; other site 232721008575 ligand binding site [chemical binding]; other site 232721008576 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 232721008577 TM-ABC transporter signature motif; other site 232721008578 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 232721008579 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 232721008580 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 232721008581 TM-ABC transporter signature motif; other site 232721008582 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 232721008583 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 232721008584 Walker A/P-loop; other site 232721008585 ATP binding site [chemical binding]; other site 232721008586 Q-loop/lid; other site 232721008587 ABC transporter signature motif; other site 232721008588 Walker B; other site 232721008589 D-loop; other site 232721008590 H-loop/switch region; other site 232721008591 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 232721008592 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 232721008593 Walker A/P-loop; other site 232721008594 ATP binding site [chemical binding]; other site 232721008595 Q-loop/lid; other site 232721008596 ABC transporter signature motif; other site 232721008597 Walker B; other site 232721008598 D-loop; other site 232721008599 H-loop/switch region; other site 232721008600 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 232721008601 6-phosphofructokinase; Provisional; Region: PRK03202 232721008602 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 232721008603 active site 232721008604 ADP/pyrophosphate binding site [chemical binding]; other site 232721008605 dimerization interface [polypeptide binding]; other site 232721008606 allosteric effector site; other site 232721008607 fructose-1,6-bisphosphate binding site; other site 232721008608 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 232721008609 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 232721008610 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 the...; Region: PNPsynthase; cd00003 232721008611 active site 232721008612 hydrophilic channel; other site 232721008613 dimerization interface [polypeptide binding]; other site 232721008614 catalytic residues [active] 232721008615 active site lid [active] 232721008616 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 232721008617 Recombination protein O N terminal; Region: RecO_N; pfam11967 232721008618 GTPase Era; Reviewed; Region: era; PRK00089 232721008619 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 232721008620 G1 box; other site 232721008621 GTP/Mg2+ binding site [chemical binding]; other site 232721008622 Switch I region; other site 232721008623 G2 box; other site 232721008624 Switch II region; other site 232721008625 G3 box; other site 232721008626 G4 box; other site 232721008627 G5 box; other site 232721008628 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 232721008629 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 post-...; Region: RIBOc; cd00593 232721008630 dimerization interface [polypeptide binding]; other site 232721008631 active site 232721008632 metal binding site [ion binding]; metal-binding site 232721008633 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...; Region: DSRM; cd00048 232721008634 signal peptidase I; Provisional; Region: PRK10861 232721008635 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 232721008636 Catalytic site [active] 232721008637 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 232721008638 GTP-binding protein LepA; Provisional; Region: PRK05433 232721008639 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 232721008640 G1 box; other site 232721008641 putative GEF interaction site [polypeptide binding]; other site 232721008642 GTP/Mg2+ binding site [chemical binding]; other site 232721008643 Switch I region; other site 232721008644 G2 box; other site 232721008645 G3 box; other site 232721008646 Switch II region; other site 232721008647 G4 box; other site 232721008648 G5 box; other site 232721008649 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...; Region: Translation_Factor_II_like; cl02787 232721008650 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 232721008651 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 232721008652 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 232721008653 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 232721008654 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 232721008655 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 232721008656 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 232721008657 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 232721008658 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721008659 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...; Region: Sigma70_r4; cd06171 232721008660 DNA binding residues [nucleotide binding] 232721008661 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 232721008662 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 232721008663 dimer interface [polypeptide binding]; other site 232721008664 active site 232721008665 Phosphopantetheine attachment site; Region: PP-binding; cl09936 232721008666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721008667 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 232721008668 NAD(P) binding site [chemical binding]; other site 232721008669 active site 232721008670 Acyl transferase domain; Region: Acyl_transf_1; cl08282 232721008671 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 232721008672 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 232721008673 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 232721008674 dimer interface [polypeptide binding]; other site 232721008675 active site 232721008676 CoA binding pocket [chemical binding]; other site 232721008677 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 232721008678 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 232721008679 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 232721008680 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 232721008681 active site 232721008682 dimer interface [polypeptide binding]; other site 232721008683 Predicted methyltransferases [General function prediction only]; Region: COG0313 232721008684 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 232721008685 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 232721008686 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 232721008687 tandem repeat interface [polypeptide binding]; other site 232721008688 oligomer interface [polypeptide binding]; other site 232721008689 active site residues [active] 232721008690 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)...; Region: Rieske; cl00938 232721008691 iron-sulfur cluster [ion binding]; other site 232721008692 [2Fe-2S] cluster binding site [ion binding]; other site 232721008693 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 232721008694 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 232721008695 motif II; other site 232721008696 ribonuclease E; Reviewed; Region: rne; PRK10811 232721008697 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 232721008698 homodimer interface [polypeptide binding]; other site 232721008699 oligonucleotide binding site [chemical binding]; other site 232721008700 Protein of unknown function (DUF328); Region: DUF328; cl01143 232721008701 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 232721008702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 232721008703 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 232721008704 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 232721008705 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 232721008706 PAS fold; Region: PAS_3; pfam08447 232721008707 putative active site [active] 232721008708 heme pocket [chemical binding]; other site 232721008709 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721008710 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721008711 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 232721008712 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 232721008713 active site 232721008714 DNA binding site [nucleotide binding] 232721008715 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 232721008716 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 232721008717 phosphate binding site [ion binding]; other site 232721008718 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 232721008719 Transglycosylase; Region: Transgly; cl07896 232721008720 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 232721008721 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 232721008722 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 232721008723 substrate binding site [chemical binding]; other site 232721008724 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 232721008725 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 232721008726 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 232721008727 putative catalytic site [active] 232721008728 putative metal binding site [ion binding]; other site 232721008729 putative phosphate binding site [ion binding]; other site 232721008730 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721008731 dimer interface [polypeptide binding]; other site 232721008732 conserved gate region; other site 232721008733 putative PBP binding loops; other site 232721008734 ABC-ATPase subunit interface; other site 232721008735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 232721008736 dimer interface [polypeptide binding]; other site 232721008737 conserved gate region; other site 232721008738 putative PBP binding loops; other site 232721008739 ABC-ATPase subunit interface; other site 232721008740 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 232721008741 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 232721008742 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 232721008743 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721008744 Walker A/P-loop; other site 232721008745 ATP binding site [chemical binding]; other site 232721008746 Q-loop/lid; other site 232721008747 ABC transporter signature motif; other site 232721008748 Walker B; other site 232721008749 D-loop; other site 232721008750 H-loop/switch region; other site 232721008751 BCCT family transporter; Region: BCCT; cl00569 232721008752 choline transport protein BetT; Provisional; Region: PRK09928 232721008753 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 232721008754 MG2 domain; Region: A2M_N; pfam01835 232721008755 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 232721008756 Alpha-2-macroglobulin family; Region: A2M; pfam00207 232721008757 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 232721008758 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 232721008759 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 232721008760 tetramer interface [polypeptide binding]; other site 232721008761 heme binding pocket [chemical binding]; other site 232721008762 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 232721008763 domain interactions; other site 232721008764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721008765 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 232721008766 argininosuccinate lyase; Provisional; Region: PRK00855 232721008767 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 232721008768 active sites [active] 232721008769 tetramer interface [polypeptide binding]; other site 232721008770 Histidine kinase; Region: His_kinase; pfam06580 232721008771 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 232721008772 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 232721008773 active site 232721008774 phosphorylation site [posttranslational modification] 232721008775 intermolecular recognition site; other site 232721008776 dimerization interface [polypeptide binding]; other site 232721008777 LytTr DNA-binding domain; Region: LytTR; cl04498 232721008778 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 232721008779 Dienelactone hydrolase family; Region: DLH; pfam01738 232721008780 DNA polymerase I; Provisional; Region: PRK05755 232721008781 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 232721008782 active site 232721008783 metal binding site 1 [ion binding]; metal-binding site 232721008784 putative 5' ssDNA interaction site; other site 232721008785 metal binding site 3; metal-binding site 232721008786 metal binding site 2 [ion binding]; metal-binding site 232721008787 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 232721008788 putative DNA binding site [nucleotide binding]; other site 232721008789 putative metal binding site [ion binding]; other site 232721008790 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 232721008791 active site 232721008792 catalytic site [active] 232721008793 substrate binding site [chemical binding]; other site 232721008794 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 232721008795 active site 232721008796 DNA binding site [nucleotide binding] 232721008797 catalytic site [active] 232721008798 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 232721008799 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 232721008800 Phosphotransferase enzyme family; Region: APH; pfam01636 232721008801 putative active site [active] 232721008802 putative substrate binding site [chemical binding]; other site 232721008803 ATP binding site [chemical binding]; other site 232721008804 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 232721008805 ligand binding site [chemical binding]; other site 232721008806 UvrD/REP helicase; Region: UvrD-helicase; cl14126 232721008807 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 232721008808 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 232721008809 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 the...; Region: IMPDH; cd00381 232721008810 active site 232721008811 Transposase domain (DUF772); Region: DUF772; cl12084 232721008812 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721008813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 232721008814 Protein of unknown function (DUF497); Region: DUF497; cl01108 232721008815 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 232721008816 Phage integrase family; Region: Phage_integrase; pfam00589 232721008817 DNA binding site [nucleotide binding] 232721008818 Int/Topo IB signature motif; other site 232721008819 active site 232721008820 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 232721008821 ligand binding site [chemical binding]; other site 232721008822 flexible hinge region; other site 232721008823 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721008824 Protein of unknown function (DUF461); Region: DUF461; cl01071 232721008825 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 232721008826 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 232721008827 putative substrate translocation pore; other site 232721008828 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 232721008829 ATP binding site [chemical binding]; other site 232721008830 Mg++ binding site [ion binding]; other site 232721008831 motif III; other site 232721008832 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 232721008833 nucleotide binding region [chemical binding]; other site 232721008834 ATP-binding site [chemical binding]; other site 232721008835 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 232721008836 putative active site [active] 232721008837 putative substrate binding site [chemical binding]; other site 232721008838 catalytic site [active] 232721008839 dimer interface [polypeptide binding]; other site 232721008840 Peptidase family M48; Region: Peptidase_M48; cl12018 232721008841 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; cd00488 232721008842 aromatic arch; other site 232721008843 DCoH dimer interaction site [polypeptide binding]; other site 232721008844 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 232721008845 DCoH tetramer interaction site [polypeptide binding]; other site 232721008846 substrate binding site [chemical binding]; other site 232721008847 GTPase RsgA; Reviewed; Region: PRK00098 232721008848 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 232721008849 GTPase/OB domain interface [polypeptide binding]; other site 232721008850 GTPase/Zn-binding domain interface [polypeptide binding]; other site 232721008851 GTP/Mg2+ binding site [chemical binding]; other site 232721008852 G4 box; other site 232721008853 G5 box; other site 232721008854 G1 box; other site 232721008855 Switch I region; other site 232721008856 G2 box; other site 232721008857 G3 box; other site 232721008858 Switch II region; other site 232721008859 CobD/Cbib protein; Region: CobD_Cbib; cl00561 232721008860 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 232721008861 putative active site [active] 232721008862 putative CoA binding site [chemical binding]; other site 232721008863 nudix motif; other site 232721008864 metal binding site [ion binding]; metal-binding site 232721008865 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 232721008866 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 232721008867 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 232721008868 RimM N-terminal domain; Region: RimM; pfam01782 232721008869 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 232721008870 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 232721008871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 232721008872 TM2 domain; Region: TM2; cl00984 232721008873 Phosphate transporter family; Region: PHO4; cl00396 232721008874 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 232721008875 Protein of unknown function, DUF486; Region: DUF486; cl01236 232721008876 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 232721008877 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 232721008878 Walker A/P-loop; other site 232721008879 ATP binding site [chemical binding]; other site 232721008880 Q-loop/lid; other site 232721008881 ABC transporter signature motif; other site 232721008882 Walker B; other site 232721008883 D-loop; other site 232721008884 H-loop/switch region; other site 232721008885 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 232721008886 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 232721008887 Walker A/P-loop; other site 232721008888 ATP binding site [chemical binding]; other site 232721008889 Q-loop/lid; other site 232721008890 ABC transporter signature motif; other site 232721008891 Walker B; other site 232721008892 D-loop; other site 232721008893 H-loop/switch region; other site 232721008894 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 232721008895 TM-ABC transporter signature motif; other site 232721008896 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 232721008897 TM-ABC transporter signature motif; other site 232721008898 recombination factor protein RarA; Reviewed; Region: PRK13342 232721008899 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...; Region: AAA; cd00009 232721008900 Walker A motif; other site 232721008901 ATP binding site [chemical binding]; other site 232721008902 Walker B motif; other site 232721008903 arginine finger; other site 232721008904 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 232721008905 integron integrase; Region: integrase_gron; TIGR02249 232721008906 DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and a secondary target called the attC (or 59-base element)...; Region: INT_IntI; cd01193 232721008907 Int/Topo IB signature motif; other site 232721008908 Transposase domain (DUF772); Region: DUF772; cl12084 232721008909 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721008910 Protein of unknown function (DUF1010); Region: DUF1010; pfam06231 232721008911 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721008912 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721008913 Protein of unknown function (DUF1010); Region: DUF1010; pfam06231 232721008914 Protein of unknown function (DUF1010); Region: DUF1010; pfam06231 232721008915 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721008916 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721008917 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721008918 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721008919 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721008920 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721008921 Protein of unknown function, DUF488; Region: DUF488; cl01246 232721008922 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 232721008923 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 232721008924 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721008925 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 232721008926 thioredoxin reductase; Provisional; Region: PRK10262 232721008927 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721008928 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 232721008929 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 232721008930 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 232721008931 Di-iron ligands [ion binding]; other site 232721008932 16S rRNA methyltransferase B; Provisional; Region: PRK14902 232721008933 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; cl12011 232721008934 Peptidase family M48; Region: Peptidase_M48; cl12018 232721008935 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 232721008936 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 232721008937 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 232721008938 active site 232721008939 substrate binding site [chemical binding]; other site 232721008940 cosubstrate binding site; other site 232721008941 catalytic site [active] 232721008942 hypothetical protein; Provisional; Region: PRK11239 232721008943 Protein of unknown function, DUF480; Region: DUF480; cl01209 232721008944 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 232721008945 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721008946 active site 232721008947 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 232721008948 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 232721008949 active site 232721008950 Transposase domain (DUF772); Region: DUF772; cl12084 232721008951 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721008952 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 232721008953 binding surface 232721008954 TPR motif; other site 232721008955 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 232721008956 TPR motif; other site 232721008957 binding surface 232721008958 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 232721008959 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...; Region: HNHc; cd00085 232721008960 active site 232721008961 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 232721008962 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 232721008963 active site 232721008964 Riboflavin kinase; Region: Flavokinase; pfam01687 232721008965 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 232721008966 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721008967 active site 232721008968 HIGH motif; other site 232721008969 nucleotide binding site [chemical binding]; other site 232721008970 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 232721008971 active site 232721008972 KMSKS motif; other site 232721008973 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 232721008974 tRNA binding surface [nucleotide binding]; other site 232721008975 anticodon binding site; other site 232721008976 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 232721008977 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 232721008978 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 232721008979 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 232721008980 PhoU domain; Region: PhoU; pfam01895 232721008981 PhoU domain; Region: PhoU; pfam01895 232721008982 Membrane transport protein; Region: Mem_trans; cl09117 232721008983 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721008984 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721008985 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...; Region: Nudix_Hydrolase; cl00447 232721008986 nudix motif; other site 232721008987 EamA-like transporter family; Region: EamA; cl01037 232721008988 EamA-like transporter family; Region: EamA; cl01037 232721008989 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 232721008990 Transposase domain (DUF772); Region: DUF772; cl12084 232721008991 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721008992 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 232721008993 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 232721008994 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 232721008995 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 232721008996 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 232721008997 Walker A motif; other site 232721008998 ATP binding site [chemical binding]; other site 232721008999 Walker B motif; other site 232721009000 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; cl12011 232721009001 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 232721009002 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 232721009003 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 232721009004 active site 232721009005 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 232721009006 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 232721009007 dimerization interface [polypeptide binding]; other site 232721009008 putative DNA binding site [nucleotide binding]; other site 232721009009 putative Zn2+ binding site [ion binding]; other site 232721009010 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 232721009011 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 232721009012 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 232721009013 Walker A/P-loop; other site 232721009014 ATP binding site [chemical binding]; other site 232721009015 Q-loop/lid; other site 232721009016 ABC transporter signature motif; other site 232721009017 Walker B; other site 232721009018 D-loop; other site 232721009019 H-loop/switch region; other site 232721009020 LolC/E family; Region: lolCE; TIGR02212 232721009021 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 232721009022 FtsX-like permease family; Region: FtsX; pfam02687 232721009023 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 232721009024 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 232721009025 putative active site [active] 232721009026 catalytic site [active] 232721009027 putative metal binding site [ion binding]; other site 232721009028 Sulfatase; Region: Sulfatase; cl10460 232721009029 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 232721009030 DHH family; Region: DHH; pfam01368 232721009031 DHHA1 domain; Region: DHHA1; pfam02272 232721009032 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 232721009033 Transposase domain (DUF772); Region: DUF772; cl12084 232721009034 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721009035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 232721009036 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 232721009037 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721009038 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721009039 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 232721009040 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 232721009041 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 232721009042 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 232721009043 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 232721009044 metal ion-dependent adhesion site (MIDAS); other site 232721009045 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...; Region: AAA; cd00009 232721009046 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 232721009047 Walker A motif; other site 232721009048 ATP binding site [chemical binding]; other site 232721009049 Walker B motif; other site 232721009050 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 232721009051 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...; Region: Heme_Cu_Oxidase_I; cl00275 232721009052 Low-spin heme binding site [chemical binding]; other site 232721009053 D-pathway; other site 232721009054 Putative water exit pathway; other site 232721009055 Binuclear center (active site) [active] 232721009056 K-pathway; other site 232721009057 Putative proton exit pathway; other site 232721009058 Cytochrome c; Region: Cytochrom_C; cl11414 232721009059 Cytochrome c; Region: Cytochrom_C; cl11414 232721009060 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 232721009061 active site 232721009062 putative substrate binding region [chemical binding]; other site 232721009063 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 232721009064 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 232721009065 active site 232721009066 HIGH motif; other site 232721009067 dimer interface [polypeptide binding]; other site 232721009068 KMSKS motif; other site 232721009069 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721009070 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721009071 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 232721009072 seryl-tRNA synthetase; Provisional; Region: PRK05431 232721009073 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 232721009074 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 232721009075 dimer interface [polypeptide binding]; other site 232721009076 active site 232721009077 motif 1; other site 232721009078 motif 2; other site 232721009079 motif 3; other site 232721009080 FOG: CBS domain [General function prediction only]; Region: COG0517 232721009081 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-...; Region: CBS_pair; cl10010 232721009082 Domain of unknown function DUF21; Region: DUF21; pfam01595 232721009083 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 232721009084 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 232721009085 Transporter associated domain; Region: CorC_HlyC; pfam03471 232721009086 LytB protein; Region: LYTB; cl00507 232721009087 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 232721009088 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 232721009089 hypothetical protein; Reviewed; Region: PRK00024 232721009090 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 232721009091 MPN+ (JAMM) motif; other site 232721009092 Zinc-binding site [ion binding]; other site 232721009093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 232721009094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 232721009095 Smr domain; Region: Smr; cl02619 232721009096 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 232721009097 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 232721009098 active site 232721009099 metal binding site [ion binding]; metal-binding site 232721009100 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 232721009101 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...; Region: Trunc_globin; cd00454 232721009102 apolar tunnel; other site 232721009103 heme binding site [chemical binding]; other site 232721009104 dimerization interface [polypeptide binding]; other site 232721009105 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 232721009106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 232721009107 Predicted kinase [General function prediction only]; Region: COG0645 232721009108 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 232721009109 ATP-binding site [chemical binding]; other site 232721009110 Gluconate-6-phosphate binding site [chemical binding]; other site 232721009111 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 232721009112 FtsX-like permease family; Region: FtsX; pfam02687 232721009113 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 232721009114 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 232721009115 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 232721009116 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 232721009117 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 232721009118 [4Fe-4S] binding site [ion binding]; other site 232721009119 molybdopterin cofactor binding site; other site 232721009120 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 232721009121 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 232721009122 molybdopterin cofactor binding site; other site 232721009123 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 232721009124 4Fe-4S binding domain; Region: Fer4; cl02805 232721009125 hypothetical protein; Provisional; Region: PRK13795 232721009126 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 232721009127 4Fe-4S binding domain; Region: Fer4; cl02805 232721009128 4Fe-4S binding domain; Region: Fer4; cl02805 232721009129 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 232721009130 hypothetical protein; Provisional; Region: PRK13795 232721009131 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 232721009132 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 232721009133 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 232721009134 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 232721009135 catalytic loop [active] 232721009136 iron binding site [ion binding]; other site 232721009137 4Fe-4S binding domain; Region: Fer4; cl02805 232721009138 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)...; Region: MopB_Formate-Dh-H; cd02753 232721009139 [4Fe-4S] binding site [ion binding]; other site 232721009140 molybdopterin cofactor binding site; other site 232721009141 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)...; Region: MopB_CT_Formate-Dh_H; cd02790 232721009142 molybdopterin cofactor binding site; other site 232721009143 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 232721009144 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-...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 232721009145 putative dimer interface [polypeptide binding]; other site 232721009146 [2Fe-2S] cluster binding site [ion binding]; other site 232721009147 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 232721009148 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 232721009149 SLBB domain; Region: SLBB; pfam10531 232721009150 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 232721009151 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 232721009152 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; cl00207 232721009153 Cation efflux family; Region: Cation_efflux; cl00316 232721009154 antiporter inner membrane protein; Provisional; Region: PRK11670 232721009155 Domain of unknown function DUF59; Region: DUF59; cl00941 232721009156 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 232721009157 Walker A motif; other site 232721009158 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 232721009159 gating phenylalanine in ion channel; other site 232721009160 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 232721009161 selenophosphate synthetase; Provisional; Region: PRK00943 232721009162 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 232721009163 dimerization interface [polypeptide binding]; other site 232721009164 putative ATP binding site [chemical binding]; other site 232721009165 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 232721009166 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 232721009167 active site residue [active] 232721009168 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 232721009169 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 232721009170 active site 232721009171 HIGH motif; other site 232721009172 KMSKS motif; other site 232721009173 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 232721009174 tRNA binding surface [nucleotide binding]; other site 232721009175 anticodon binding site; other site 232721009176 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 232721009177 dimer interface [polypeptide binding]; other site 232721009178 putative tRNA-binding site [nucleotide binding]; other site 232721009179 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 232721009180 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 232721009181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 232721009182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721009183 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 232721009184 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 232721009185 phosphate binding site [ion binding]; other site 232721009186 hypothetical protein; Validated; Region: PRK07586 232721009187 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 232721009188 PYR/PP interface [polypeptide binding]; other site 232721009189 dimer interface [polypeptide binding]; other site 232721009190 TPP binding site [chemical binding]; other site 232721009191 TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of benzoylformate to benzaldehyde and carbon dioxide. This...; Region: TPP_BFDC; cd02002 232721009192 TPP-binding site [chemical binding]; other site 232721009193 dimer interface [polypeptide binding]; other site 232721009194 Uncharacterized conserved protein [Function unknown]; Region: COG1284 232721009195 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 232721009196 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 232721009197 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 232721009198 ScpA/B protein; Region: ScpA_ScpB; cl00598 232721009199 L-aspartate oxidase; Provisional; Region: PRK09077 232721009200 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721009201 domain; Region: Succ_DH_flav_C; pfam02910 232721009202 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 232721009203 tetramerization interface [polypeptide binding]; other site 232721009204 active site 232721009205 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 232721009206 putative substrate binding pocket [chemical binding]; other site 232721009207 trimer interface [polypeptide binding]; other site 232721009208 aminodeoxychorismate synthase; Provisional; Region: PRK07508 232721009209 chorismate binding enzyme; Region: Chorismate_bind; cl10555 232721009210 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 232721009211 substrate-cofactor binding pocket; other site 232721009212 homodimer interface [polypeptide binding]; other site 232721009213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721009214 catalytic residue [active] 232721009215 Quinolinate synthetase A protein; Region: NadA; cl00420 232721009216 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 232721009217 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 5-...; Region: QPRTase; cd01572 232721009218 dimerization interface [polypeptide binding]; other site 232721009219 active site 232721009220 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 232721009221 oligomerization interface [polypeptide binding]; other site 232721009222 active site 232721009223 metal binding site [ion binding]; metal-binding site 232721009224 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721009225 active site 232721009226 nucleotide binding site [chemical binding]; other site 232721009227 HIGH motif; other site 232721009228 KMSKS motif; other site 232721009229 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 232721009230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721009231 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 232721009232 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 232721009233 SecA binding site; other site 232721009234 Preprotein binding site; other site 232721009235 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 232721009236 GSH binding site [chemical binding]; other site 232721009237 catalytic residues [active] 232721009238 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 232721009239 active site residue [active] 232721009240 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 232721009241 catalytic core [active] 232721009242 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 232721009243 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 232721009244 C-terminal peptidase (prc); Region: prc; TIGR00225 232721009245 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 232721009246 protein binding site [polypeptide binding]; other site 232721009247 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 232721009248 Catalytic dyad [active] 232721009249 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 232721009250 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...; Region: ThiF_MoeB_HesA_family; cd00757 232721009251 ATP binding site [chemical binding]; other site 232721009252 substrate interface [chemical binding]; other site 232721009253 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 232721009254 Response regulator receiver domain; Region: Response_reg; pfam00072 232721009255 active site 232721009256 phosphorylation site [posttranslational modification] 232721009257 intermolecular recognition site; other site 232721009258 dimerization interface [polypeptide binding]; other site 232721009259 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 232721009260 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 232721009261 active site 232721009262 phosphorylation site [posttranslational modification] 232721009263 intermolecular recognition site; other site 232721009264 dimerization interface [polypeptide binding]; other site 232721009265 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...; Region: LuxR_C_like; cd06170 232721009266 DNA binding residues [nucleotide binding] 232721009267 dimerization interface [polypeptide binding]; other site 232721009268 CHASE3 domain; Region: CHASE3; cl05000 232721009269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 232721009270 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 232721009271 ATP binding site [chemical binding]; other site 232721009272 Mg2+ binding site [ion binding]; other site 232721009273 G-X-G motif; other site 232721009274 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 232721009275 dinuclear metal binding motif [ion binding]; other site 232721009276 BON domain; Region: BON; cl02771 232721009277 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; cl09206 232721009278 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 232721009279 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 232721009280 active site 232721009281 (T/H)XGH motif; other site 232721009282 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; cl12011 232721009283 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 232721009284 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 232721009285 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 232721009286 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 232721009287 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 232721009288 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 232721009289 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721009290 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 232721009291 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 232721009292 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721009293 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...; Region: Sigma70_r4; cl01055 232721009294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721009295 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 232721009296 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 232721009297 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 232721009298 ligand binding site [chemical binding]; other site 232721009299 PAS domain S-box; Region: sensory_box; TIGR00229 232721009300 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 232721009301 putative active site [active] 232721009302 heme pocket [chemical binding]; other site 232721009303 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721009304 metal binding site [ion binding]; metal-binding site 232721009305 active site 232721009306 I-site; other site 232721009307 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 232721009308 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 232721009309 Cu(I) binding site [ion binding]; other site 232721009310 UbiA prenyltransferase family; Region: UbiA; cl00337 232721009311 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 232721009312 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 232721009313 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 232721009314 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 232721009315 Subunit III/VIIa interface [polypeptide binding]; other site 232721009316 Phospholipid binding site [chemical binding]; other site 232721009317 Subunit I/III interface [polypeptide binding]; other site 232721009318 Subunit III/VIb interface [polypeptide binding]; other site 232721009319 Subunit III/VIa interface; other site 232721009320 Subunit III/Vb interface [polypeptide binding]; other site 232721009321 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 232721009322 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 232721009323 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 232721009324 Subunit I/III interface [polypeptide binding]; other site 232721009325 D-pathway; other site 232721009326 Subunit I/VIIc interface [polypeptide binding]; other site 232721009327 Subunit I/IV interface [polypeptide binding]; other site 232721009328 Subunit I/II interface [polypeptide binding]; other site 232721009329 Low-spin heme (heme a) binding site [chemical binding]; other site 232721009330 Subunit I/VIIa interface [polypeptide binding]; other site 232721009331 Subunit I/VIa interface [polypeptide binding]; other site 232721009332 Dimer interface; other site 232721009333 Putative water exit pathway; other site 232721009334 Binuclear center (heme a3/CuB) [ion binding]; other site 232721009335 K-pathway; other site 232721009336 Subunit I/Vb interface [polypeptide binding]; other site 232721009337 Putative proton exit pathway; other site 232721009338 Subunit I/VIb interface; other site 232721009339 Subunit I/VIc interface [polypeptide binding]; other site 232721009340 Electron transfer pathway; other site 232721009341 Subunit I/VIIIb interface [polypeptide binding]; other site 232721009342 Subunit I/VIIb interface [polypeptide binding]; other site 232721009343 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 232721009344 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 232721009345 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 232721009346 Cytochrome c; Region: Cytochrom_C; cl11414 232721009347 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 232721009348 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 232721009349 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721009350 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 232721009351 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 232721009352 putative active site [active] 232721009353 putative catalytic site [active] 232721009354 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 232721009355 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...; Region: ParA; cd02042 232721009356 P-loop; other site 232721009357 Magnesium ion binding site [ion binding]; other site 232721009358 LysE type translocator; Region: LysE; cl00565 232721009359 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 232721009360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721009361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721009362 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 232721009363 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 232721009364 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 232721009365 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 232721009366 dimer interface [polypeptide binding]; other site 232721009367 active site 232721009368 Coenzyme A transferase; Region: CoA_trans; cl00773 232721009369 Coenzyme A transferase; Region: CoA_trans; cl00773 232721009370 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 232721009371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721009372 Bacterial transcriptional regulator; Region: IclR; pfam01614 232721009373 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 232721009374 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 232721009375 Ligand Binding Site [chemical binding]; other site 232721009376 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 232721009377 Ligand Binding Site [chemical binding]; other site 232721009378 Cytochrome c; Region: Cytochrom_C; cl11414 232721009379 Cytochrome c; Region: Cytochrom_C; cl11414 232721009380 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...; Region: AAA; cd00009 232721009381 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 232721009382 Walker A motif; other site 232721009383 ATP binding site [chemical binding]; other site 232721009384 Walker B motif; other site 232721009385 arginine finger; other site 232721009386 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 232721009387 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 232721009388 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 232721009389 Surface antigen; Region: Bac_surface_Ag; cl03097 232721009390 Family of unknown function (DUF490); Region: DUF490; pfam04357 232721009391 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 232721009392 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 232721009393 putative active site [active] 232721009394 catalytic site [active] 232721009395 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 232721009396 putative active site [active] 232721009397 catalytic site [active] 232721009398 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 232721009399 catalytic residues [active] 232721009400 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 232721009401 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 232721009402 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 232721009403 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 232721009404 Walker A/P-loop; other site 232721009405 ATP binding site [chemical binding]; other site 232721009406 Q-loop/lid; other site 232721009407 ABC transporter signature motif; other site 232721009408 Walker B; other site 232721009409 D-loop; other site 232721009410 H-loop/switch region; other site 232721009411 TOBE domain; Region: TOBE_2; cl01440 232721009412 Yip1 domain; Region: Yip1; cl12048 232721009413 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 232721009414 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 232721009415 putative acyl-acceptor binding pocket; other site 232721009416 dihydroorotase; Provisional; Region: PRK07627 232721009417 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...; Region: metallo-dependent_hydrolases; cl00281 232721009418 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 232721009419 active site 232721009420 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 232721009421 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 232721009422 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 232721009423 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721009424 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 232721009425 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 232721009426 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 232721009427 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 232721009428 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 232721009429 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 232721009430 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 232721009431 putative binding surface; other site 232721009432 active site 232721009433 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 232721009434 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 232721009435 ATP binding site [chemical binding]; other site 232721009436 Mg2+ binding site [ion binding]; other site 232721009437 G-X-G motif; other site 232721009438 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 232721009439 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 232721009440 Response regulator receiver domain; Region: Response_reg; pfam00072 232721009441 active site 232721009442 phosphorylation site [posttranslational modification] 232721009443 intermolecular recognition site; other site 232721009444 dimerization interface [polypeptide binding]; other site 232721009445 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721009446 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721009447 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 232721009448 Response regulator receiver domain; Region: Response_reg; pfam00072 232721009449 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 232721009450 active site 232721009451 phosphorylation site [posttranslational modification] 232721009452 intermolecular recognition site; other site 232721009453 dimerization interface [polypeptide binding]; other site 232721009454 Response regulator receiver domain; Region: Response_reg; pfam00072 232721009455 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 232721009456 active site 232721009457 phosphorylation site [posttranslational modification] 232721009458 intermolecular recognition site; other site 232721009459 dimerization interface [polypeptide binding]; other site 232721009460 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...; Region: rubredoxin; cd00730 232721009461 Rubredoxin; Region: Rubredoxin; pfam00301 232721009462 iron binding site [ion binding]; other site 232721009463 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, 2-...; Region: ribokinase_pfkB_like; cl00192 232721009464 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 232721009465 substrate binding site [chemical binding]; other site 232721009466 ATP binding site [chemical binding]; other site 232721009467 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 232721009468 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 232721009469 inhibitor-cofactor binding pocket; inhibition site 232721009470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721009471 catalytic residue [active] 232721009472 PhoD-like phosphatase; Region: PhoD; pfam09423 232721009473 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 232721009474 putative active site [active] 232721009475 putative metal binding site [ion binding]; other site 232721009476 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 232721009477 Cytochrome c; Region: Cytochrom_C; cl11414 232721009478 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 232721009479 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 232721009480 purine monophosphate binding site [chemical binding]; other site 232721009481 dimer interface [polypeptide binding]; other site 232721009482 putative catalytic residues [active] 232721009483 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 232721009484 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 232721009485 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 232721009486 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 232721009487 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...; Region: DUS_like_FMN; cd02801 232721009488 FMN binding site [chemical binding]; other site 232721009489 active site 232721009490 catalytic residues [active] 232721009491 substrate binding site [chemical binding]; other site 232721009492 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 232721009493 HipA-like N-terminal domain; Region: HipA_N; pfam07805 232721009494 HipA-like C-terminal domain; Region: HipA_C; pfam07804 232721009495 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 232721009496 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 232721009497 non-specific DNA binding site [nucleotide binding]; other site 232721009498 salt bridge; other site 232721009499 sequence-specific DNA binding site [nucleotide binding]; other site 232721009500 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 232721009501 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...; Region: AAA; cd00009 232721009502 Walker A motif; other site 232721009503 ATP binding site [chemical binding]; other site 232721009504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721009505 Integrase core domain; Region: rve; cl01316 232721009506 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 232721009507 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 232721009508 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 232721009509 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...; Region: AAA; cd00009 232721009510 Walker A motif; other site 232721009511 ATP binding site [chemical binding]; other site 232721009512 Walker B motif; other site 232721009513 Protein of unknown function DUF262; Region: DUF262; cl14890 232721009514 Uncharacterized conserved protein (DUF2081); Region: DUF2081; cl09179 232721009515 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 232721009516 Divergent AAA domain; Region: AAA_4; pfam04326 232721009517 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 232721009518 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 232721009519 RecF/RecN/SMC N terminal domain; Region: SMC_N; pfam02463 232721009520 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721009521 Q-loop/lid; other site 232721009522 ABC transporter signature motif; other site 232721009523 Walker B; other site 232721009524 D-loop; other site 232721009525 H-loop/switch region; other site 232721009526 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 232721009527 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 232721009528 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; cl14882 232721009529 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 232721009530 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 232721009531 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 232721009532 Divergent AAA domain; Region: AAA_4; pfam04326 232721009533 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 232721009534 HsdM N-terminal domain; Region: HsdM_N; pfam12161 232721009535 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; cl12011 232721009536 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 232721009537 HsdM N-terminal domain; Region: HsdM_N; pfam12161 232721009538 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; cl12011 232721009539 Transposase domain (DUF772); Region: DUF772; cl12084 232721009540 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721009541 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 232721009542 DNA binding site [nucleotide binding] 232721009543 Int/Topo IB signature motif; other site 232721009544 active site 232721009545 integrase; Provisional; Region: PRK09692 232721009546 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 232721009547 active site 232721009548 Int/Topo IB signature motif; other site 232721009549 GTP-binding protein YchF; Reviewed; Region: PRK09601 232721009550 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 232721009551 G1 box; other site 232721009552 GTP/Mg2+ binding site [chemical binding]; other site 232721009553 Switch I region; other site 232721009554 G2 box; other site 232721009555 Switch II region; other site 232721009556 G3 box; other site 232721009557 G4 box; other site 232721009558 G5 box; other site 232721009559 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 232721009560 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 232721009561 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 232721009562 MOSC domain; Region: MOSC; pfam03473 232721009563 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721009564 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 232721009565 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 232721009566 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...; Region: DsbA_DsbC_DsbG; cd03020 232721009567 dimerization domain [polypeptide binding]; other site 232721009568 dimer interface [polypeptide binding]; other site 232721009569 catalytic residues [active] 232721009570 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 232721009571 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 232721009572 enoyl-CoA hydratase; Provisional; Region: PRK05862 232721009573 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 232721009574 substrate binding site [chemical binding]; other site 232721009575 oxyanion hole (OAH) forming residues; other site 232721009576 trimer interface [polypeptide binding]; other site 232721009577 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 232721009578 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 232721009579 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 232721009580 FeS/SAM binding site; other site 232721009581 TRAM domain; Region: TRAM; cl01282 232721009582 signal recognition particle protein; Provisional; Region: PRK10867 232721009583 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 232721009584 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 232721009585 GTP binding site [chemical binding]; other site 232721009586 Signal peptide binding domain; Region: SRP_SPB; pfam02978 232721009587 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 232721009588 sensory histidine kinase AtoS; Provisional; Region: PRK11360 232721009589 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 trans-...; Region: HisKA; cd00082 232721009590 dimer interface [polypeptide binding]; other site 232721009591 phosphorylation site [posttranslational modification] 232721009592 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 232721009593 ATP binding site [chemical binding]; other site 232721009594 Mg2+ binding site [ion binding]; other site 232721009595 G-X-G motif; other site 232721009596 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 232721009597 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 232721009598 active site 232721009599 phosphorylation site [posttranslational modification] 232721009600 intermolecular recognition site; other site 232721009601 dimerization interface [polypeptide binding]; other site 232721009602 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...; Region: AAA; cd00009 232721009603 Walker A motif; other site 232721009604 ATP binding site [chemical binding]; other site 232721009605 Walker B motif; other site 232721009606 arginine finger; other site 232721009607 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 232721009608 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 232721009609 amidase catalytic site [active] 232721009610 Zn binding residues [ion binding]; other site 232721009611 substrate binding site [chemical binding]; other site 232721009612 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 232721009613 ATP cone domain; Region: ATP-cone; pfam03477 232721009614 Class I ribonucleotide reductase; Region: RNR_I; cd01679 232721009615 active site 232721009616 dimer interface [polypeptide binding]; other site 232721009617 catalytic residues [active] 232721009618 effector binding site; other site 232721009619 R2 peptide binding site; other site 232721009620 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 232721009621 dimer interface [polypeptide binding]; other site 232721009622 putative radical transfer pathway; other site 232721009623 diiron center [ion binding]; other site 232721009624 tyrosyl radical; other site 232721009625 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 232721009626 substrate binding site [chemical binding]; other site 232721009627 ATP binding site [chemical binding]; other site 232721009628 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 232721009629 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 232721009630 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 232721009631 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; cl12011 232721009632 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 232721009633 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 232721009634 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721009635 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 232721009636 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 232721009637 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 232721009638 carboxyltransferase (CT) interaction site; other site 232721009639 biotinylation site [posttranslational modification]; other site 232721009640 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...; Region: TlpA_like_family; cd02966 232721009641 catalytic residues [active] 232721009642 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 232721009643 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 232721009644 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 232721009645 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 232721009646 NeuB family; Region: NeuB; cl00496 232721009647 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 232721009648 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 232721009649 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 232721009650 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 232721009651 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 232721009652 O-Antigen ligase; Region: Wzy_C; cl04850 232721009653 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 232721009654 Cytochrome c; Region: Cytochrom_C; cl11414 232721009655 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 232721009656 dinuclear metal binding motif [ion binding]; other site 232721009657 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 232721009658 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721009659 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...; Region: Sigma70_r4; cl01055 232721009660 RNB domain; Region: RNB; pfam00773 232721009661 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 232721009662 Gram-negative bacterial tonB protein; Region: TonB; cl10048 232721009663 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 232721009664 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 232721009665 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 232721009666 shikimate binding site; other site 232721009667 NAD(P) binding site [chemical binding]; other site 232721009668 Transglycosylase; Region: Transgly; cl07896 232721009669 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 includes...; Region: RuvC_resolvase; cd00529 232721009670 active site 232721009671 putative DNA-binding cleft [nucleotide binding]; other site 232721009672 dimer interface [polypeptide binding]; other site 232721009673 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 232721009674 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721009675 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721009676 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721009677 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 232721009678 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721009679 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721009680 ThiC family; Region: ThiC; cl08031 232721009681 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 232721009682 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 232721009683 Cache domain; Region: Cache_2; pfam08269 232721009684 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721009685 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721009686 cell division protein FtsZ; Validated; Region: PRK09330 232721009687 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...; Region: FtsZ_type1; cd02201 232721009688 nucleotide binding site [chemical binding]; other site 232721009689 SulA interaction site; other site 232721009690 cell division protein FtsA; Region: ftsA; TIGR01174 232721009691 Cell division protein FtsA; Region: FtsA; cl11496 232721009692 Cell division protein FtsA; Region: FtsA; cl11496 232721009693 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 232721009694 Cell division protein FtsQ; Region: FtsQ; pfam03799 232721009695 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 232721009696 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 232721009697 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721009698 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 232721009699 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 232721009700 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 232721009701 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 232721009702 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 232721009703 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...; Region: GT1_MurG; cd03785 232721009704 active site 232721009705 homodimer interface [polypeptide binding]; other site 232721009706 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 232721009707 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 232721009708 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 232721009709 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 232721009710 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 232721009711 Mg++ binding site [ion binding]; other site 232721009712 putative catalytic motif [active] 232721009713 putative substrate binding site [chemical binding]; other site 232721009714 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 232721009715 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 232721009716 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 232721009717 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 232721009718 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 232721009719 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 232721009720 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 232721009721 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 232721009722 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 232721009723 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 232721009724 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 232721009725 Septum formation initiator; Region: DivIC; cl11433 232721009726 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 232721009727 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; cl12011 232721009728 MraZ protein; Region: MraZ; pfam02381 232721009729 MraZ protein; Region: MraZ; pfam02381 232721009730 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 232721009731 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...; Region: AAA; cd00009 232721009732 Walker A motif; other site 232721009733 ATP binding site [chemical binding]; other site 232721009734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721009735 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-...; Region: Ntn_hydrolase; cl00467 232721009736 active site 232721009737 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 232721009738 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 232721009739 P-loop, Walker A motif; other site 232721009740 Base recognition motif; other site 232721009741 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 232721009742 PUA domain; Region: PUA; cl00607 232721009743 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 232721009744 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 232721009745 S-adenosylmethionine binding site [chemical binding]; other site 232721009746 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 232721009747 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 232721009748 DNA binding site [nucleotide binding] 232721009749 Int/Topo IB signature motif; other site 232721009750 active site 232721009751 Protein of unknown function, DUF484; Region: DUF484; cl01228 232721009752 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 232721009753 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 232721009754 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 232721009755 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...; Region: Nudix_Hydrolase; cl00447 232721009756 nudix motif; other site 232721009757 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 232721009758 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 232721009759 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 232721009760 RNA binding surface [nucleotide binding]; other site 232721009761 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSSA_1; cd02555 232721009762 active site 232721009763 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 232721009764 YhhN-like protein; Region: YhhN; cl01505 232721009765 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 232721009766 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...; Region: AAA; cd00009 232721009767 Walker A motif; other site 232721009768 ATP binding site [chemical binding]; other site 232721009769 Walker B motif; other site 232721009770 arginine finger; other site 232721009771 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 232721009772 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 232721009773 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 232721009774 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 232721009775 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 232721009776 DNA-K related protein; Region: DUF3731; pfam12531 232721009777 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 232721009778 RuvA N terminal domain; Region: RuvA_N; pfam01330 232721009779 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 232721009780 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 232721009781 PhoH-like protein; Region: PhoH; cl12134 232721009782 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 232721009783 Transposase domain (DUF772); Region: DUF772; cl12084 232721009784 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721009785 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 232721009786 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 232721009787 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 232721009788 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 232721009789 ATP binding site [chemical binding]; other site 232721009790 Mg++ binding site [ion binding]; other site 232721009791 motif III; other site 232721009792 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 232721009793 nucleotide binding region [chemical binding]; other site 232721009794 ATP-binding site [chemical binding]; other site 232721009795 DbpA RNA binding domain; Region: DbpA; pfam03880 232721009796 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 232721009797 putative active site [active] 232721009798 dimerization interface [polypeptide binding]; other site 232721009799 putative tRNAtyr binding site [nucleotide binding]; other site 232721009800 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 232721009801 Cation efflux family; Region: Cation_efflux; cl00316 232721009802 PAS fold; Region: PAS_4; pfam08448 232721009803 PAS domain S-box; Region: sensory_box; TIGR00229 232721009804 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 232721009805 putative active site [active] 232721009806 heme pocket [chemical binding]; other site 232721009807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721009808 metal binding site [ion binding]; metal-binding site 232721009809 active site 232721009810 I-site; other site 232721009811 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 232721009812 AMP nucleosidase; Provisional; Region: PRK08292 232721009813 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 232721009814 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 232721009815 MgtC family; Region: MgtC; cl12207 232721009816 nodulation ABC transporter NodI; Provisional; Region: PRK13537 232721009817 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 232721009818 Walker A/P-loop; other site 232721009819 ATP binding site [chemical binding]; other site 232721009820 Q-loop/lid; other site 232721009821 ABC transporter signature motif; other site 232721009822 Walker B; other site 232721009823 D-loop; other site 232721009824 H-loop/switch region; other site 232721009825 ABC-2 type transporter; Region: ABC2_membrane; cl11417 232721009826 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 232721009827 GAF domain; Region: GAF; cl00853 232721009828 choline dehydrogenase; Validated; Region: PRK02106 232721009829 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 232721009830 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 232721009831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721009832 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721009833 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 232721009834 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; cl09155 232721009835 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 232721009836 Peptidase family M48; Region: Peptidase_M48; cl12018 232721009837 cysteine synthases; Region: cysKM; TIGR01136 232721009838 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 232721009839 dimer interface [polypeptide binding]; other site 232721009840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721009841 catalytic residue [active] 232721009842 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 232721009843 putative catalytic site [active] 232721009844 putative metal binding site [ion binding]; other site 232721009845 putative phosphate binding site [ion binding]; other site 232721009846 cardiolipin synthase 2; Provisional; Region: PRK11263 232721009847 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 232721009848 putative active site [active] 232721009849 catalytic site [active] 232721009850 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 232721009851 putative active site [active] 232721009852 catalytic site [active] 232721009853 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 232721009854 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 232721009855 UPF0126 domain; Region: UPF0126; pfam03458 232721009856 UPF0126 domain; Region: UPF0126; pfam03458 232721009857 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 232721009858 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 232721009859 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 232721009860 Ligand binding site [chemical binding]; other site 232721009861 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 232721009862 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...; Region: NPD_like; cd04730 232721009863 FMN binding site [chemical binding]; other site 232721009864 substrate binding site [chemical binding]; other site 232721009865 putative catalytic residue [active] 232721009866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721009867 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 232721009868 CoA-transferase family III; Region: CoA_transf_3; cl00778 232721009869 enoyl-CoA hydratase; Provisional; Region: PRK07511 232721009870 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 232721009871 substrate binding site [chemical binding]; other site 232721009872 oxyanion hole (OAH) forming residues; other site 232721009873 trimer interface [polypeptide binding]; other site 232721009874 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 232721009875 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 232721009876 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 232721009877 active site 232721009878 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 232721009879 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721009880 active site 232721009881 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 232721009882 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 232721009883 dimer interface [polypeptide binding]; other site 232721009884 active site 232721009885 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 232721009886 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 232721009887 substrate binding site [chemical binding]; other site 232721009888 oxyanion hole (OAH) forming residues; other site 232721009889 trimer interface [polypeptide binding]; other site 232721009890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721009891 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721009892 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 232721009893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721009894 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721009895 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 232721009896 putative effector binding pocket; other site 232721009897 dimerization interface [polypeptide binding]; other site 232721009898 Peptidase family M48; Region: Peptidase_M48; cl12018 232721009899 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 232721009900 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 232721009901 putative metal binding site [ion binding]; other site 232721009902 LOTUS is an uncharacterized small globular domain found in Limkain b1, Oskar and Tudor-containing proteins 5 and 7; Region: LOTUS; cl14879 232721009903 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 232721009904 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 232721009905 active site 232721009906 substrate binding pocket [chemical binding]; other site 232721009907 dimer interface [polypeptide binding]; other site 232721009908 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 232721009909 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 232721009910 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 232721009911 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 232721009912 excinuclease ABC, A subunit; Region: uvra; TIGR00630 232721009913 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 232721009914 excinuclease ABC subunit A; Provisional; Region: PRK00635 232721009915 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 232721009916 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 232721009917 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721009918 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 232721009919 putative ligand binding site [chemical binding]; other site 232721009920 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721009921 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 232721009922 putative ligand binding site [chemical binding]; other site 232721009923 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...; Region: gram_neg_porins; cd00342 232721009924 trimer interface [polypeptide binding]; other site 232721009925 eyelet of channel; other site 232721009926 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 232721009927 putative substrate translocation pore; other site 232721009928 metabolite-proton symporter; Region: 2A0106; TIGR00883 232721009929 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 232721009930 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 1,2-; Region: DsbA_HCCA_Iso; cd03022 232721009931 putative catalytic residue [active] 232721009932 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 232721009933 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 232721009934 putative deacylase active site [active] 232721009935 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 232721009936 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 232721009937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721009938 metal binding site [ion binding]; metal-binding site 232721009939 active site 232721009940 I-site; other site 232721009941 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 232721009942 active site 232721009943 catalytic residues [active] 232721009944 metal binding site [ion binding]; metal-binding site 232721009945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721009946 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 232721009947 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 232721009948 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721009949 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 232721009950 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 232721009951 carboxyltransferase (CT) interaction site; other site 232721009952 biotinylation site [posttranslational modification]; other site 232721009953 enoyl-CoA hydratase; Provisional; Region: PRK05995 232721009954 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 232721009955 substrate binding site [chemical binding]; other site 232721009956 oxyanion hole (OAH) forming residues; other site 232721009957 trimer interface [polypeptide binding]; other site 232721009958 DinB superfamily; Region: DinB_2; cl00986 232721009959 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 232721009960 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 232721009961 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 232721009962 AMP-binding domain protein; Validated; Region: PRK08315 232721009963 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721009964 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 232721009965 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 232721009966 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 232721009967 Transposase domain (DUF772); Region: DUF772; cl12084 232721009968 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 232721009969 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 232721009970 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins...; Region: GST_N_GTT1_like; cd03046 232721009971 putative C-terminal domain interface [polypeptide binding]; other site 232721009972 putative GSH binding site (G-site) [chemical binding]; other site 232721009973 putative dimer interface [polypeptide binding]; other site 232721009974 Glutathione S-transferase (GST) family, C-terminal alpha helical 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...; Region: GST_C_family; cl02776 232721009975 N-terminal domain interface [polypeptide binding]; other site 232721009976 dimer interface [polypeptide binding]; other site 232721009977 substrate binding pocket (H-site) [chemical binding]; other site 232721009978 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 232721009979 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721009980 SEC-C motif; Region: SEC-C; cl12132 232721009981 hypothetical protein; Provisional; Region: PRK04233 232721009982 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 232721009983 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721009984 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721009985 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 232721009986 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; cl11391 232721009987 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 232721009988 motif II; other site 232721009989 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 232721009990 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 232721009991 active site 232721009992 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 232721009993 NADP binding site [chemical binding]; other site 232721009994 homodimer interface [polypeptide binding]; other site 232721009995 active site 232721009996 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 232721009997 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 232721009998 dimer interface [polypeptide binding]; other site 232721009999 active site 232721010000 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 232721010001 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 232721010002 active site clefts [active] 232721010003 zinc binding site [ion binding]; other site 232721010004 dimer interface [polypeptide binding]; other site 232721010005 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 232721010006 isovaleryl-CoA dehydrogenase; Region: PLN02519 232721010007 substrate binding site [chemical binding]; other site 232721010008 FAD binding site [chemical binding]; other site 232721010009 catalytic base [active] 232721010010 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 232721010011 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 232721010012 DNA binding residues [nucleotide binding] 232721010013 putative dimer interface [polypeptide binding]; other site 232721010014 Transposase, Mutator family; Region: Transposase_mut; pfam00872 232721010015 MULE transposase domain; Region: MULE; pfam10551 232721010016 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 232721010017 Integrase core domain; Region: rve; cl01316 232721010018 ABC transporter ATPase component; Reviewed; Region: PRK11147 232721010019 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721010020 Walker A/P-loop; other site 232721010021 ATP binding site [chemical binding]; other site 232721010022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721010023 Q-loop/lid; other site 232721010024 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 232721010025 ABC transporter; Region: ABC_tran_2; pfam12848 232721010026 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 232721010027 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 232721010028 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 232721010029 active site 232721010030 phosphorylation site [posttranslational modification] 232721010031 intermolecular recognition site; other site 232721010032 dimerization interface [polypeptide binding]; other site 232721010033 CheB methylesterase; Region: CheB_methylest; pfam01339 232721010034 CheD chemotactic sensory transduction; Region: CheD; cl00810 232721010035 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 232721010036 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 232721010037 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; cl12011 232721010038 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 232721010039 putative CheA interaction surface; other site 232721010040 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 232721010041 putative binding surface; other site 232721010042 active site 232721010043 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 232721010044 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 232721010045 ATP binding site [chemical binding]; other site 232721010046 Mg2+ binding site [ion binding]; other site 232721010047 G-X-G motif; other site 232721010048 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 232721010049 Response regulator receiver domain; Region: Response_reg; pfam00072 232721010050 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 232721010051 active site 232721010052 phosphorylation site [posttranslational modification] 232721010053 intermolecular recognition site; other site 232721010054 dimerization interface [polypeptide binding]; other site 232721010055 Response regulator receiver domain; Region: Response_reg; pfam00072 232721010056 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 232721010057 active site 232721010058 phosphorylation site [posttranslational modification] 232721010059 intermolecular recognition site; other site 232721010060 dimerization interface [polypeptide binding]; other site 232721010061 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 232721010062 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 232721010063 ATP binding site [chemical binding]; other site 232721010064 Mg2+ binding site [ion binding]; other site 232721010065 G-X-G motif; other site 232721010066 response regulator; Provisional; Region: PRK09483 232721010067 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 232721010068 active site 232721010069 phosphorylation site [posttranslational modification] 232721010070 intermolecular recognition site; other site 232721010071 dimerization interface [polypeptide binding]; other site 232721010072 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...; Region: LuxR_C_like; cd06170 232721010073 DNA binding residues [nucleotide binding] 232721010074 dimerization interface [polypeptide binding]; other site 232721010075 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 232721010076 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 232721010077 FliP family; Region: FliP; cl00593 232721010078 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 232721010079 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 232721010080 flagellar motor switch protein; Validated; Region: fliN; PRK05698 232721010081 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 232721010082 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 232721010083 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 232721010084 Flagellar hook-length control protein FliK; Region: Flg_hook; cl14669 232721010085 Flagellar FliJ protein; Region: FliJ; cl09161 232721010086 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 232721010087 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 232721010088 Walker A motif/ATP binding site; other site 232721010089 Walker B motif; other site 232721010090 Flagellar assembly protein FliH; Region: FliH; pfam02108 232721010091 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 232721010092 FliG C-terminal domain; Region: FliG_C; pfam01706 232721010093 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 232721010094 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 232721010095 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 232721010096 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 232721010097 Flagellar protein FliT; Region: FliT; cl05125 232721010098 Flagellar protein FliS; Region: FliS; cl00654 232721010099 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 232721010100 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 232721010101 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 232721010102 flagellin; Provisional; Region: PRK12802 232721010103 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 232721010104 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 232721010105 flagellin; Provisional; Region: PRK12802 232721010106 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 232721010107 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 232721010108 flagellin; Provisional; Region: PRK12802 232721010109 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 232721010110 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 232721010111 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 232721010112 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 232721010113 flagellar motor protein MotB; Validated; Region: motB; PRK09041 232721010114 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 232721010115 ligand binding site [chemical binding]; other site 232721010116 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 232721010117 Response regulator receiver domain; Region: Response_reg; pfam00072 232721010118 active site 232721010119 phosphorylation site [posttranslational modification] 232721010120 intermolecular recognition site; other site 232721010121 dimerization interface [polypeptide binding]; other site 232721010122 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 232721010123 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 232721010124 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 232721010125 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 232721010126 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 232721010127 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 232721010128 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 232721010129 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 232721010130 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 232721010131 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 232721010132 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 232721010133 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 232721010134 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...; Region: Sigma70_r4; cd06171 232721010135 DNA binding residues [nucleotide binding] 232721010136 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 232721010137 SAF domain; Region: SAF; cl00555 232721010138 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 232721010139 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 232721010140 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 232721010141 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 232721010142 Flagellar hook capping protein; Region: FlgD; cl04347 232721010143 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 232721010144 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 232721010145 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 232721010146 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 232721010147 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 232721010148 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 232721010149 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 232721010150 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 232721010151 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 232721010152 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 232721010153 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 232721010154 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 232721010155 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 232721010156 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 232721010157 Flagellar L-ring protein; Region: FlgH; cl00905 232721010158 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 232721010159 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 232721010160 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 232721010161 Rod binding protein; Region: Rod-binding; cl01626 232721010162 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 232721010163 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 232721010164 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 232721010165 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 232721010166 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 232721010167 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 232721010168 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 232721010169 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 232721010170 Nitronate monooxygenase; Region: NMO; pfam03060 232721010171 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...; Region: NPD_like; cd04730 232721010172 FMN binding site [chemical binding]; other site 232721010173 substrate binding site [chemical binding]; other site 232721010174 putative catalytic residue [active] 232721010175 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 232721010176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721010177 DNA-binding site [nucleotide binding]; DNA binding site 232721010178 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 232721010179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721010180 homodimer interface [polypeptide binding]; other site 232721010181 catalytic residue [active] 232721010182 LysE type translocator; Region: LysE; cl00565 232721010183 EamA-like transporter family; Region: EamA; cl01037 232721010184 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 232721010185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721010186 homodimer interface [polypeptide binding]; other site 232721010187 catalytic residue [active] 232721010188 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 232721010189 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 232721010190 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 232721010191 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 232721010192 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721010193 catalytic residue [active] 232721010194 Putative cyclase; Region: Cyclase; cl00814 232721010195 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 232721010196 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 232721010197 putative ligand binding site [chemical binding]; other site 232721010198 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 232721010199 NAD(P) binding site [chemical binding]; other site 232721010200 active site 232721010201 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 232721010202 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 232721010203 catalytic core [active] 232721010204 Creatinine amidohydrolase; Region: Creatininase; cl00618 232721010205 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 232721010206 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 232721010207 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 232721010208 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 232721010209 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 232721010210 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 232721010211 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 232721010212 DsbD alpha interface [polypeptide binding]; other site 232721010213 catalytic residues [active] 232721010214 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 232721010215 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 232721010216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010217 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 232721010218 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 232721010219 homodimer interface [polypeptide binding]; other site 232721010220 substrate-cofactor binding pocket; other site 232721010221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721010222 catalytic residue [active] 232721010223 Integral membrane protein TerC family; Region: TerC; cl10468 232721010224 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 232721010225 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010226 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 232721010227 dimerization interface [polypeptide binding]; other site 232721010228 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...; Region: URO-D; cd00717 232721010229 substrate binding site [chemical binding]; other site 232721010230 active site 232721010231 primosome assembly protein PriA; Validated; Region: PRK05580 232721010232 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 232721010233 ATP binding site [chemical binding]; other site 232721010234 putative Mg++ binding site [ion binding]; other site 232721010235 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; cl14882 232721010236 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 232721010237 active site/substrate binding site [active] 232721010238 tetramer interface [polypeptide binding]; other site 232721010239 Membrane transport protein; Region: Mem_trans; cl09117 232721010240 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 232721010241 UvrD/REP helicase; Region: UvrD-helicase; cl14126 232721010242 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among Gram-...; Region: OMPLA; cd00541 232721010243 substrate binding site [chemical binding]; other site 232721010244 dimerization interface [polypeptide binding]; other site 232721010245 active site 232721010246 calcium binding site [ion binding]; other site 232721010247 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 232721010248 Ligand Binding Site [chemical binding]; other site 232721010249 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 232721010250 Protein of unknown function DUF72; Region: DUF72; cl00777 232721010251 Double zinc ribbon; Region: DZR; pfam12773 232721010252 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 232721010253 yiaA/B two helix domain; Region: YiaAB; cl01759 232721010254 yiaA/B two helix domain; Region: YiaAB; cl01759 232721010255 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 232721010256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010257 D-cysteine desulfhydrase; Validated; Region: PRK03910 232721010258 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 232721010259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721010260 catalytic residue [active] 232721010261 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 232721010262 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 232721010263 putative acyl-acceptor binding pocket; other site 232721010264 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 232721010265 Protein required for attachment to host cells; Region: Host_attach; cl02398 232721010266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721010267 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 232721010268 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 232721010269 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 232721010270 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 232721010271 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 232721010272 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 232721010273 FIST N domain; Region: FIST; pfam08495 232721010274 FIST C domain; Region: FIST_C; pfam10442 232721010275 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cl00257 232721010276 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (; Region: PTPc; cl00053 232721010277 Response regulator receiver domain; Region: Response_reg; pfam00072 232721010278 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 232721010279 active site 232721010280 phosphorylation site [posttranslational modification] 232721010281 intermolecular recognition site; other site 232721010282 dimerization interface [polypeptide binding]; other site 232721010283 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 232721010284 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 232721010285 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 connected by an extended linker. The...; Region: HAMP; cd06225 232721010286 dimerization interface [polypeptide binding]; other site 232721010287 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 232721010288 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 trans-...; Region: HisKA; cd00082 232721010289 dimer interface [polypeptide binding]; other site 232721010290 phosphorylation site [posttranslational modification] 232721010291 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 232721010292 ATP binding site [chemical binding]; other site 232721010293 Mg2+ binding site [ion binding]; other site 232721010294 G-X-G motif; other site 232721010295 16S rRNA methyltransferase B; Provisional; Region: PRK10901 232721010296 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; cl12011 232721010297 LemA family; Region: LemA; cl00742 232721010298 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 232721010299 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 232721010300 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 232721010301 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 232721010302 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 232721010303 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 232721010304 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 232721010305 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 232721010306 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 232721010307 DNA binding site [nucleotide binding] 232721010308 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 232721010309 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; cl04593 232721010310 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 232721010311 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 232721010312 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 232721010313 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; cl04593 232721010314 RPB11 interaction site [polypeptide binding]; other site 232721010315 RPB12 interaction site [polypeptide binding]; other site 232721010316 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 232721010317 RPB3 interaction site [polypeptide binding]; other site 232721010318 RPB1 interaction site [polypeptide binding]; other site 232721010319 RPB11 interaction site [polypeptide binding]; other site 232721010320 RPB10 interaction site [polypeptide binding]; other site 232721010321 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 232721010322 peripheral dimer interface [polypeptide binding]; other site 232721010323 core dimer interface [polypeptide binding]; other site 232721010324 L10 interface [polypeptide binding]; other site 232721010325 L11 interface [polypeptide binding]; other site 232721010326 putative EF-Tu interaction site [polypeptide binding]; other site 232721010327 putative EF-G interaction site [polypeptide binding]; other site 232721010328 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...; Region: Ribosomal_L10; cd05797 232721010329 23S rRNA interface [nucleotide binding]; other site 232721010330 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 232721010331 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...; Region: Ribosomal_L1; cd00403 232721010332 mRNA/rRNA interface [nucleotide binding]; other site 232721010333 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 232721010334 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 232721010335 23S rRNA interface [nucleotide binding]; other site 232721010336 L7/L12 interface [polypeptide binding]; other site 232721010337 putative thiostrepton binding site; other site 232721010338 L25 interface [polypeptide binding]; other site 232721010339 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 232721010340 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 232721010341 putative homodimer interface [polypeptide binding]; other site 232721010342 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 232721010343 elongation factor Tu; Reviewed; Region: PRK00049 232721010344 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 232721010345 G1 box; other site 232721010346 GEF interaction site [polypeptide binding]; other site 232721010347 GTP/Mg2+ binding site [chemical binding]; other site 232721010348 Switch I region; other site 232721010349 G2 box; other site 232721010350 G3 box; other site 232721010351 Switch II region; other site 232721010352 G4 box; other site 232721010353 G5 box; other site 232721010354 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 232721010355 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 232721010356 Antibiotic Binding Site [chemical binding]; other site 232721010357 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 232721010358 glutathione synthetase; Provisional; Region: PRK05246 232721010359 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 232721010360 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721010361 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 232721010362 Sulfate transporter family; Region: Sulfate_transp; cl00967 232721010363 potassium uptake protein; Region: kup; TIGR00794 232721010364 K+ potassium transporter; Region: K_trans; cl01227 232721010365 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 232721010366 Glutamate-cysteine ligase; Region: GshA; pfam08886 232721010367 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 232721010368 Cation transport protein; Region: TrkH; cl10514 232721010369 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 232721010370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010371 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721010372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010373 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721010374 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 232721010375 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 232721010376 putative catalytic cysteine [active] 232721010377 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 232721010378 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 232721010379 Lipopolysaccharide-assembly; Region: LptE; cl01125 232721010380 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 232721010381 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 232721010382 HIGH motif; other site 232721010383 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 232721010384 active site 232721010385 KMSKS motif; other site 232721010386 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 232721010387 tRNA binding surface [nucleotide binding]; other site 232721010388 Transposase domain (DUF772); Region: DUF772; cl12084 232721010389 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 232721010390 Mechanosensitive ion channel; Region: MS_channel; pfam00924 232721010391 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 232721010392 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 232721010393 dihydrodipicolinate reductase; Provisional; Region: PRK00048 232721010394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010395 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 232721010396 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 232721010397 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 232721010398 metal binding site 2 [ion binding]; metal-binding site 232721010399 putative DNA binding helix; other site 232721010400 metal binding site 1 [ion binding]; metal-binding site 232721010401 dimer interface [polypeptide binding]; other site 232721010402 structural Zn2+ binding site [ion binding]; other site 232721010403 HPr kinase/phosphorylase; Provisional; Region: PRK05428 232721010404 DRTGG domain; Region: DRTGG; cl12147 232721010405 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-...; Region: HprK_C; cd01918 232721010406 Hpr binding site; other site 232721010407 active site 232721010408 homohexamer subunit interaction site [polypeptide binding]; other site 232721010409 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 232721010410 active site 232721010411 phosphorylation site [posttranslational modification] 232721010412 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 A site...; Region: RaiA; cd00552 232721010413 30S subunit binding site; other site 232721010414 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 232721010415 active site 232721010416 ATP binding site [chemical binding]; other site 232721010417 substrate binding site [chemical binding]; other site 232721010418 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 232721010419 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 232721010420 N-terminal plug; other site 232721010421 ligand-binding site [chemical binding]; other site 232721010422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 232721010423 META domain; Region: META; cl01245 232721010424 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 232721010425 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 232721010426 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 232721010427 conserved cys residue [active] 232721010428 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 232721010429 AIR carboxylase; Region: AIRC; cl00310 232721010430 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 232721010431 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 232721010432 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721010433 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 232721010434 SUA5 domain; Region: SUA5; pfam03481 232721010435 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 232721010436 active site 232721010437 catalytic triad [active] 232721010438 oxyanion hole [active] 232721010439 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 232721010440 oxyanion hole [active] 232721010441 Beta-lactamase; Region: Beta-lactamase; cl01009 232721010442 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 232721010443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 232721010444 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 232721010445 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 232721010446 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 232721010447 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 232721010448 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 232721010449 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 232721010450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721010451 Ubiquitin-like proteins; Region: UBQ; cl00155 232721010452 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 232721010453 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 232721010454 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 232721010455 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 232721010456 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 232721010457 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 232721010458 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 232721010459 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 232721010460 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 232721010461 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 232721010462 hypothetical protein; Provisional; Region: PRK08185 232721010463 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...; Region: TBP_aldolase_IIB; cd00947 232721010464 intersubunit interface [polypeptide binding]; other site 232721010465 active site 232721010466 zinc binding site [ion binding]; other site 232721010467 Na+ binding site [ion binding]; other site 232721010468 pyruvate kinase; Provisional; Region: PRK05826 232721010469 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; cl09155 232721010470 domain interfaces; other site 232721010471 active site 232721010472 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 232721010473 proline aminopeptidase P II; Provisional; Region: PRK10879 232721010474 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...; Region: Prolidase; cd01087 232721010475 active site 232721010476 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 232721010477 Substrate binding site [chemical binding]; other site 232721010478 metal binding site [ion binding]; metal-binding site 232721010479 transketolase; Reviewed; Region: PRK12753 232721010480 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 232721010481 TPP-binding site [chemical binding]; other site 232721010482 dimer interface [polypeptide binding]; other site 232721010483 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 232721010484 PYR/PP interface [polypeptide binding]; other site 232721010485 dimer interface [polypeptide binding]; other site 232721010486 TPP binding site [chemical binding]; other site 232721010487 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 232721010488 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 232721010489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010490 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 232721010491 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 232721010492 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 232721010493 Peptidase C26; Region: Peptidase_C26; pfam07722 232721010494 catalytic triad [active] 232721010495 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 232721010496 Cupin domain; Region: Cupin_2; cl09118 232721010497 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 232721010498 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 232721010499 dimer interface [polypeptide binding]; other site 232721010500 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 232721010501 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 232721010502 putative NAD(P) binding site [chemical binding]; other site 232721010503 active site 232721010504 DTW domain; Region: DTW; cl01221 232721010505 Transcriptional regulator [Transcription]; Region: IclR; COG1414 232721010506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010507 Bacterial transcriptional regulator; Region: IclR; pfam01614 232721010508 thiolase; Provisional; Region: PRK06158 232721010509 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 3-ketacyl-; Region: SCP-x_thiolase; cd00829 232721010510 active site 232721010511 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 232721010512 DUF35 OB-fold domain; Region: DUF35; pfam01796 232721010513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721010514 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 232721010515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010516 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 232721010517 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...; Region: GST_N_Ure2p_like; cd03048 232721010518 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 232721010519 C-terminal domain interface [polypeptide binding]; other site 232721010520 GSH binding site (G-site) [chemical binding]; other site 232721010521 dimer interface [polypeptide binding]; other site 232721010522 GST_C 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...; Region: GST_C_Ure2p_like; cd03178 232721010523 dimer interface [polypeptide binding]; other site 232721010524 N-terminal domain interface [polypeptide binding]; other site 232721010525 putative substrate binding pocket (H-site) [chemical binding]; other site 232721010526 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 232721010527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010528 NAD(P) binding site [chemical binding]; other site 232721010529 active site 232721010530 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 232721010531 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 232721010532 Protein of unknown function (DUF1010); Region: DUF1010; pfam06231 232721010533 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 232721010534 putative metal binding site [ion binding]; other site 232721010535 DNA topoisomerase III; Provisional; Region: PRK14724 232721010536 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 232721010537 active site 232721010538 putative interdomain interaction site [polypeptide binding]; other site 232721010539 putative metal-binding site [ion binding]; other site 232721010540 putative nucleotide binding site [chemical binding]; other site 232721010541 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...; Region: TOP1Ac; cd00186 232721010542 domain I; other site 232721010543 DNA binding groove [nucleotide binding] 232721010544 phosphate binding site [ion binding]; other site 232721010545 domain II; other site 232721010546 domain III; other site 232721010547 nucleotide binding site [chemical binding]; other site 232721010548 catalytic site [active] 232721010549 domain IV; other site 232721010550 SWIB/MDM2 domain; Region: SWIB; cl02489 232721010551 SET domain; Region: SET; cl02566 232721010552 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 232721010553 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 232721010554 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 232721010555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721010556 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 232721010557 N-formylglutamate amidohydrolase; Region: FGase; cl01522 232721010558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721010559 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 232721010560 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 232721010561 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010562 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 232721010563 dimerization interface [polypeptide binding]; other site 232721010564 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 232721010565 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 trans-...; Region: HisKA; cd00082 232721010566 dimer interface [polypeptide binding]; other site 232721010567 phosphorylation site [posttranslational modification] 232721010568 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 232721010569 ATP binding site [chemical binding]; other site 232721010570 Mg2+ binding site [ion binding]; other site 232721010571 G-X-G motif; other site 232721010572 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 232721010573 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 232721010574 active site 232721010575 phosphorylation site [posttranslational modification] 232721010576 intermolecular recognition site; other site 232721010577 dimerization interface [polypeptide binding]; other site 232721010578 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...; Region: trans_reg_C; cd00383 232721010579 DNA binding site [nucleotide binding] 232721010580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010581 recombinase A; Provisional; Region: recA; PRK09354 232721010582 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 232721010583 hexamer interface [polypeptide binding]; other site 232721010584 Walker A motif; other site 232721010585 ATP binding site [chemical binding]; other site 232721010586 Walker B motif; other site 232721010587 RecX family; Region: RecX; cl00936 232721010588 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 232721010589 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 232721010590 Protein export membrane protein; Region: SecD_SecF; cl14618 232721010591 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 232721010592 Protein export membrane protein; Region: SecD_SecF; cl14618 232721010593 Preprotein translocase subunit; Region: YajC; cl00806 232721010594 Mechanosensitive ion channel; Region: MS_channel; pfam00924 232721010595 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 232721010596 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 232721010597 dimer interface [polypeptide binding]; other site 232721010598 PYR/PP interface [polypeptide binding]; other site 232721010599 TPP binding site [chemical binding]; other site 232721010600 substrate binding site [chemical binding]; other site 232721010601 TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the...; Region: TPP_IOR_alpha; cd02008 232721010602 TPP-binding site; other site 232721010603 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 232721010604 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 232721010605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010607 Bacterial protein of unknown function (DUF894); Region: DUF894; pfam05977 232721010608 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 232721010609 putative substrate translocation pore; other site 232721010610 MltA specific insert domain; Region: MltA; pfam03562 232721010611 3D domain; Region: 3D; cl01439 232721010612 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 232721010613 ligand binding site [chemical binding]; other site 232721010614 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 232721010615 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 232721010616 active site 232721010617 phosphorylation site [posttranslational modification] 232721010618 intermolecular recognition site; other site 232721010619 dimerization interface [polypeptide binding]; other site 232721010620 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...; Region: LuxR_C_like; cd06170 232721010621 DNA binding residues [nucleotide binding] 232721010622 dimerization interface [polypeptide binding]; other site 232721010623 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 232721010624 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 232721010625 putative active site [active] 232721010626 heme pocket [chemical binding]; other site 232721010627 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 trans-...; Region: HisKA; cd00082 232721010628 dimer interface [polypeptide binding]; other site 232721010629 phosphorylation site [posttranslational modification] 232721010630 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 232721010631 ATP binding site [chemical binding]; other site 232721010632 Mg2+ binding site [ion binding]; other site 232721010633 G-X-G motif; other site 232721010634 Predicted amidohydrolase [General function prediction only]; Region: COG0388 232721010635 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 232721010636 putative active site [active] 232721010637 catalytic triad [active] 232721010638 dimer interface [polypeptide binding]; other site 232721010639 TIGR02099 family protein; Region: TIGR02099 232721010640 TIGR02099 family protein; Region: TIGR02099 232721010641 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 232721010642 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 232721010643 metal binding triad; other site 232721010644 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 232721010645 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 232721010646 metal binding triad; other site 232721010647 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 232721010648 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 232721010649 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 232721010650 NodT family; Region: outer_NodT; TIGR01845 232721010651 Outer membrane efflux protein; Region: OEP; pfam02321 232721010652 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 232721010653 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 232721010654 Protein export membrane protein; Region: SecD_SecF; cl14618 232721010655 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...; Region: GSH_Peroxidase; cd00340 232721010656 catalytic residues [active] 232721010657 dimer interface [polypeptide binding]; other site 232721010658 putative glutathione S-transferase; Provisional; Region: PRK10357 232721010659 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 232721010660 putative C-terminal domain interface [polypeptide binding]; other site 232721010661 putative GSH binding site (G-site) [chemical binding]; other site 232721010662 putative dimer interface [polypeptide binding]; other site 232721010663 GST_C family, unknown subfamily 6; 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_C_6; cd03205 232721010664 putative N-terminal domain interface [polypeptide binding]; other site 232721010665 adenylosuccinate lyase; Provisional; Region: PRK09285 232721010666 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 232721010667 tetramer interface [polypeptide binding]; other site 232721010668 active site 232721010669 YaeQ protein; Region: YaeQ; cl01913 232721010670 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 232721010671 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 232721010672 yybP-ykoY element as predicted by Rfam (RF00080), score 35.78 232721010673 Integral membrane protein TerC family; Region: TerC; cl10468 232721010674 Membrane protein of unknown function; Region: DUF360; cl00850 232721010675 Peptidase family M48; Region: Peptidase_M48; cl12018 232721010676 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...; Region: MoaC_PE; cd01420 232721010677 trimer interface [polypeptide binding]; other site 232721010678 dimer interface [polypeptide binding]; other site 232721010679 putative active site [active] 232721010680 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 232721010681 active site 232721010682 NTP binding site [chemical binding]; other site 232721010683 metal binding triad [ion binding]; metal-binding site 232721010684 antibiotic binding site [chemical binding]; other site 232721010685 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 232721010686 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 232721010687 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...; Region: MoaC_PE; cd01420 232721010688 trimer interface [polypeptide binding]; other site 232721010689 dimer interface [polypeptide binding]; other site 232721010690 putative active site [active] 232721010691 Pilin (bacterial filament); Region: Pilin; pfam00114 232721010692 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721010693 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721010694 Transposase; Region: DEDD_Tnp_IS110; pfam01548 232721010695 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 232721010696 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 232721010697 phosphopeptide binding site; other site 232721010698 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 232721010699 Active site [active] 232721010700 Integral membrane protein TerC family; Region: TerC; cl10468 232721010701 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 232721010702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010703 CoA-ligase; Region: Ligase_CoA; pfam00549 232721010704 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 232721010705 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 232721010706 CoA-ligase; Region: Ligase_CoA; pfam00549 232721010707 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 232721010708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010709 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 232721010710 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 232721010711 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 232721010712 putative peptidoglycan binding site; other site 232721010713 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(...; Region: Pep_deformylase; cd00487 232721010714 active site 232721010715 catalytic residues [active] 232721010716 metal binding site [ion binding]; metal-binding site 232721010717 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 232721010718 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 232721010719 putative active site [active] 232721010720 substrate binding site [chemical binding]; other site 232721010721 putative cosubstrate binding site; other site 232721010722 catalytic site [active] 232721010723 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 232721010724 substrate binding site [chemical binding]; other site 232721010725 AzlC protein; Region: AzlC; cl00570 232721010726 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 232721010727 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 232721010728 substrate binding site [chemical binding]; other site 232721010729 hinge regions; other site 232721010730 ADP binding site [chemical binding]; other site 232721010731 catalytic site [active] 232721010732 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 232721010733 EamA-like transporter family; Region: EamA; cl01037 232721010734 EamA-like transporter family; Region: EamA; cl01037 232721010735 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 contains two...; Region: OMP_decarboxylase_like; cd04725 232721010736 active site 232721010737 dimer interface [polypeptide binding]; other site 232721010738 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 232721010739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721010740 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 232721010741 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 232721010742 active site 232721010743 Zn-binding site [ion binding]; other site 232721010744 Nitrate and nitrite sensing; Region: NIT; pfam08376 232721010745 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721010746 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721010747 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721010748 Sodium:solute symporter family; Region: SSF; cl00456 232721010749 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 232721010750 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 232721010751 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 232721010752 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 232721010753 Major Facilitator Superfamily; Region: MFS_1; pfam07690 232721010754 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; cl11420 232721010755 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 232721010756 dimer interface [polypeptide binding]; other site 232721010757 ssDNA binding site [nucleotide binding]; other site 232721010758 tetramer (dimer of dimers) interface [polypeptide binding]; other site 232721010759 glycolate transporter; Provisional; Region: PRK09695 232721010760 L-lactate permease; Region: Lactate_perm; cl00701 232721010761 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 232721010762 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 232721010763 Ligand Binding Site [chemical binding]; other site 232721010764 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 232721010765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010766 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 232721010767 putative dimerization interface [polypeptide binding]; other site 232721010768 tricarballylate dehydrogenase; Validated; Region: PRK08274 232721010769 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 232721010770 tricarballylate utilization protein B; Provisional; Region: PRK15033 232721010771 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721010772 Integrase core domain; Region: rve; cl01316 232721010773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 232721010774 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 232721010775 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...; Region: Nudix_Hydrolase_2; cd03675 232721010776 nudix motif; other site 232721010777 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 232721010778 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 232721010779 N-terminal plug; other site 232721010780 ligand-binding site [chemical binding]; other site 232721010781 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 232721010782 Lumazine binding domain; Region: Lum_binding; pfam00677 232721010783 Lumazine binding domain; Region: Lum_binding; pfam00677 232721010784 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 232721010785 Predicted ATPase [General function prediction only]; Region: COG4637 232721010786 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721010787 Walker A/P-loop; other site 232721010788 ATP binding site [chemical binding]; other site 232721010789 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; cl12011 232721010790 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; cl12011 232721010791 sensor protein PhoQ; Provisional; Region: PRK10815 232721010792 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 232721010793 ATP binding site [chemical binding]; other site 232721010794 Mg2+ binding site [ion binding]; other site 232721010795 G-X-G motif; other site 232721010796 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 232721010797 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 232721010798 active site 232721010799 phosphorylation site [posttranslational modification] 232721010800 intermolecular recognition site; other site 232721010801 dimerization interface [polypeptide binding]; other site 232721010802 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...; Region: trans_reg_C; cd00383 232721010803 DNA binding site [nucleotide binding] 232721010804 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 232721010805 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 232721010806 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 232721010807 FAD binding pocket [chemical binding]; other site 232721010808 FAD binding motif [chemical binding]; other site 232721010809 phosphate binding motif [ion binding]; other site 232721010810 beta-alpha-beta structure motif; other site 232721010811 NAD binding pocket [chemical binding]; other site 232721010812 Uncharacterized conserved protein [Function unknown]; Region: COG5591 232721010813 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl01469 232721010814 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 232721010815 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 232721010816 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 232721010817 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 232721010818 FAD binding pocket [chemical binding]; other site 232721010819 FAD binding motif [chemical binding]; other site 232721010820 catalytic residues [active] 232721010821 NAD binding pocket [chemical binding]; other site 232721010822 phosphate binding motif [ion binding]; other site 232721010823 beta-alpha-beta structure motif; other site 232721010824 ApbE family; Region: ApbE; cl00643 232721010825 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 232721010826 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; cl12011 232721010827 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 232721010828 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; cl14882 232721010829 Restriction endonuclease [Defense mechanisms]; Region: COG3587 232721010830 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; cl12011 232721010831 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; cl12011 232721010832 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 232721010833 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 232721010834 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 232721010835 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 232721010836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 232721010837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 232721010838 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 232721010839 dimerization interface [polypeptide binding]; other site 232721010840 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 232721010841 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 232721010842 inhibitor-cofactor binding pocket; inhibition site 232721010843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 232721010844 catalytic residue [active] 232721010845 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 232721010846 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 232721010847 tetrameric interface [polypeptide binding]; other site 232721010848 NAD binding site [chemical binding]; other site 232721010849 catalytic residues [active] 232721010850 malic enzyme; Reviewed; Region: PRK12862 232721010851 Malic enzyme, N-terminal domain; Region: malic; pfam00390 232721010852 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 232721010853 putative NAD(P) binding site [chemical binding]; other site 232721010854 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 232721010855 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a...; Region: RNase_Sa; cd00607 232721010856 active site 232721010857 barstar interaction site; other site 232721010858 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 232721010859 putative RNAase interaction site [polypeptide binding]; other site 232721010860 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; cl12011 232721010861 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 232721010862 SurA N-terminal domain; Region: SurA_N; pfam09312 232721010863 PPIC-type PPIASE domain; Region: Rotamase; cl08278 232721010864 PPIC-type PPIASE domain; Region: Rotamase; cl08278 232721010865 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 232721010866 Organic solvent tolerance protein; Region: OstA_C; pfam04453 232721010867 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 232721010868 Phosphotransferase enzyme family; Region: APH; pfam01636 232721010869 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 232721010870 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 232721010871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721010872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721010873 Walker A/P-loop; other site 232721010874 Walker A/P-loop; other site 232721010875 ATP binding site [chemical binding]; other site 232721010876 ATP binding site [chemical binding]; other site 232721010877 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 232721010878 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 232721010879 ABC transporter signature motif; other site 232721010880 Walker B; other site 232721010881 D-loop; other site 232721010882 H-loop/switch region; other site 232721010883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721010884 metal binding site [ion binding]; metal-binding site 232721010885 active site 232721010886 I-site; other site 232721010887 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 232721010888 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721010889 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721010890 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 232721010891 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 232721010892 metal binding site [ion binding]; metal-binding site 232721010893 putative dimer interface [polypeptide binding]; other site 232721010894 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 232721010895 metal binding site [ion binding]; metal-binding site 232721010896 active site 232721010897 I-site; other site 232721010898 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 connected by an extended linker. The...; Region: HAMP; cl01054 232721010899 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 232721010900 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 232721010901 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 232721010902 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 232721010903 S-adenosylmethionine binding site [chemical binding]; other site 232721010904 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 232721010905 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 232721010906 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 232721010907 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 232721010908 yybP-ykoY element as predicted by Rfam (RF00080), score 42.21 232721010909 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 232721010910 RNA/DNA binding site [nucleotide binding]; other site 232721010911 RRM dimerization site [polypeptide binding]; other site 232721010912 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 232721010913 RNA/DNA binding site [nucleotide binding]; other site 232721010914 RRM dimerization site [polypeptide binding]; other site 232721010915 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 232721010916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010917 NAD(P) binding site [chemical binding]; other site 232721010918 active site 232721010919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 232721010920 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; cl11391 232721010921 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 232721010922 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 5-...; Region: SIS_Kpsf; cd05014 232721010923 putative active site [active] 232721010924 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 232721010925 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 232721010926 putative cation:proton antiport protein; Provisional; Region: PRK10669 232721010927 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 232721010928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010929 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 232721010930 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 232721010931 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 232721010932 Integrase core domain; Region: rve; cl01316 232721010933 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 232721010934 ligand binding site [chemical binding]; other site 232721010935 flexible hinge region; other site 232721010936 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 232721010937 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 232721010938 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 232721010939 G1 box; other site 232721010940 GTP/Mg2+ binding site [chemical binding]; other site 232721010941 Switch I region; other site 232721010942 G2 box; other site 232721010943 Switch II region; other site 232721010944 G3 box; other site 232721010945 G4 box; other site 232721010946 G5 box; other site 232721010947 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 232721010948 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 232721010949 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 232721010950 N-terminal domain; Region: yidC_nterm; TIGR03593 232721010951 membrane protein insertase; Provisional; Region: PRK01318 232721010952 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 232721010953 Domain of unknown function DUF37; Region: DUF37; cl00506 232721010954 Ribonuclease P; Region: Ribonuclease_P; cl00457 232721010955 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 232721010956 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 232721010957 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...; Region: AAA; cd00009 232721010958 Walker A motif; other site 232721010959 ATP binding site [chemical binding]; other site 232721010960 Walker B motif; other site 232721010961 arginine finger; other site 232721010962 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 232721010963 DnaA box-binding interface [nucleotide binding]; other site 232721010964 DNA polymerase III subunit beta; Validated; Region: PRK05643 232721010965 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...; Region: beta_clamp; cd00140 232721010966 putative DNA binding surface [nucleotide binding]; other site 232721010967 dimer interface [polypeptide binding]; other site 232721010968 beta-clamp/clamp loader binding surface; other site 232721010969 beta-clamp/translesion DNA polymerase binding surface; other site 232721010970 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 232721010971 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 232721010972 ATP binding site [chemical binding]; other site 232721010973 Mg2+ binding site [ion binding]; other site 232721010974 G-X-G motif; other site 232721010975 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 232721010976 anchoring element; other site 232721010977 dimer interface [polypeptide binding]; other site 232721010978 ATP binding site [chemical binding]; other site 232721010979 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 232721010980 active site 232721010981 putative metal-binding site [ion binding]; other site 232721010982 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 232721010983 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 232721010984 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 232721010985 Coenzyme A binding pocket [chemical binding]; other site 232721010986 Flagellin N-methylase; Region: FliB; cl00497 232721010987 OsmC-like protein; Region: OsmC; cl00767 232721010988 Protein of unknown function DUF72; Region: DUF72; cl00777 232721010989 Acylphosphatase; Region: Acylphosphatase; cl00551 232721010990 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 232721010991 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 alpha-; Region: HCP_like; cl14655 232721010992 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 232721010993 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 232721010994 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 232721010995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 232721010996 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 232721010997 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 232721010998 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 232721010999 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 232721011000 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; cl14882 232721011001 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 232721011002 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 232721011003 active site 232721011004 catalytic site [active] 232721011005 substrate binding site [chemical binding]; other site 232721011006 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 232721011007 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 232721011008 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 232721011009 DNA-binding site [nucleotide binding]; DNA binding site 232721011010 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 232721011011 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 232721011012 catalytic residue [active]