-- dump date 20140619_003509 -- class Genbank::misc_feature -- table misc_feature_note -- id note 360910000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 360910000002 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 360910000003 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 360910000006 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 360910000007 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 360910000008 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360910000009 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 360910000010 P-loop; other site 360910000011 Magnesium ion binding site [ion binding]; other site 360910000012 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 360910000013 Magnesium ion binding site [ion binding]; other site 360910000014 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 360910000015 ParB-like nuclease domain; Region: ParB; smart00470 360910000016 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360910000017 active site 360910000018 homodimer interface [polypeptide binding]; other site 360910000019 homotetramer interface [polypeptide binding]; other site 360910000022 elongation factor Tu; Reviewed; Region: PRK00049 360910000023 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360910000024 G1 box; other site 360910000025 GEF interaction site [polypeptide binding]; other site 360910000026 GTP/Mg2+ binding site [chemical binding]; other site 360910000027 Switch I region; other site 360910000028 G2 box; other site 360910000029 G3 box; other site 360910000030 Switch II region; other site 360910000031 G4 box; other site 360910000032 G5 box; other site 360910000033 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 360910000034 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 360910000035 Antibiotic Binding Site [chemical binding]; other site 360910000038 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 360910000039 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 360910000040 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 360910000041 putative homodimer interface [polypeptide binding]; other site 360910000042 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 360910000043 heterodimer interface [polypeptide binding]; other site 360910000044 homodimer interface [polypeptide binding]; other site 360910000046 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 360910000047 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 360910000048 23S rRNA interface [nucleotide binding]; other site 360910000049 L7/L12 interface [polypeptide binding]; other site 360910000050 putative thiostrepton binding site; other site 360910000051 L25 interface [polypeptide binding]; other site 360910000053 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 360910000054 mRNA/rRNA interface [nucleotide binding]; other site 360910000056 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 360910000057 23S rRNA interface [nucleotide binding]; other site 360910000058 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 360910000059 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 360910000060 core dimer interface [polypeptide binding]; other site 360910000061 peripheral dimer interface [polypeptide binding]; other site 360910000062 L10 interface [polypeptide binding]; other site 360910000063 L11 interface [polypeptide binding]; other site 360910000064 putative EF-Tu interaction site [polypeptide binding]; other site 360910000065 putative EF-G interaction site [polypeptide binding]; other site 360910000066 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 360910000067 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 360910000068 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 360910000069 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 360910000070 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 360910000071 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 360910000072 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 360910000073 RPB3 interaction site [polypeptide binding]; other site 360910000074 RPB1 interaction site [polypeptide binding]; other site 360910000075 RPB11 interaction site [polypeptide binding]; other site 360910000076 RPB10 interaction site [polypeptide binding]; other site 360910000078 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 360910000079 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 360910000080 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 360910000081 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 360910000082 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 360910000083 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 360910000084 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 360910000085 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 360910000086 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 360910000087 DNA binding site [nucleotide binding] 360910000088 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 360910000090 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 360910000091 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 360910000092 substrate binding site [chemical binding]; other site 360910000093 activation loop (A-loop); other site 360910000094 CHASE2 domain; Region: CHASE2; pfam05226 360910000095 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 360910000096 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910000097 dimer interface [polypeptide binding]; other site 360910000098 phosphorylation site [posttranslational modification] 360910000099 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 360910000100 ATP binding site [chemical binding]; other site 360910000101 G-X-G motif; other site 360910000102 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360910000103 FecR protein; Region: FecR; pfam04773 360910000104 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910000105 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 360910000106 active site 360910000107 phosphorylation site [posttranslational modification] 360910000108 intermolecular recognition site; other site 360910000109 dimerization interface [polypeptide binding]; other site 360910000110 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910000111 DNA binding site [nucleotide binding] 360910000112 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910000113 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 360910000114 active site 360910000115 phosphorylation site [posttranslational modification] 360910000116 intermolecular recognition site; other site 360910000117 dimerization interface [polypeptide binding]; other site 360910000118 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910000119 DNA binding site [nucleotide binding] 360910000120 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 360910000121 S17 interaction site [polypeptide binding]; other site 360910000122 S8 interaction site; other site 360910000123 16S rRNA interaction site [nucleotide binding]; other site 360910000124 streptomycin interaction site [chemical binding]; other site 360910000125 23S rRNA interaction site [nucleotide binding]; other site 360910000126 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 360910000128 30S ribosomal protein S7; Validated; Region: PRK05302 360910000130 elongation factor G; Reviewed; Region: PRK00007 360910000131 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 360910000132 G1 box; other site 360910000133 putative GEF interaction site [polypeptide binding]; other site 360910000134 GTP/Mg2+ binding site [chemical binding]; other site 360910000135 Switch I region; other site 360910000136 G2 box; other site 360910000137 G3 box; other site 360910000138 Switch II region; other site 360910000139 G4 box; other site 360910000140 G5 box; other site 360910000141 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 360910000142 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 360910000143 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 360910000146 elongation factor Tu; Reviewed; Region: PRK00049 360910000147 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360910000148 G1 box; other site 360910000149 GEF interaction site [polypeptide binding]; other site 360910000150 GTP/Mg2+ binding site [chemical binding]; other site 360910000151 Switch I region; other site 360910000152 G2 box; other site 360910000153 G3 box; other site 360910000154 Switch II region; other site 360910000155 G4 box; other site 360910000156 G5 box; other site 360910000157 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 360910000158 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 360910000159 Antibiotic Binding Site [chemical binding]; other site 360910000162 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 360910000164 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 360910000166 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 360910000167 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 360910000168 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 360910000169 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 360910000170 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 360910000172 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 360910000174 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 360910000175 putative translocon binding site; other site 360910000176 protein-rRNA interface [nucleotide binding]; other site 360910000179 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 360910000180 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 360910000181 G-X-X-G motif; other site 360910000182 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 360910000184 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 360910000185 23S rRNA interface [nucleotide binding]; other site 360910000186 5S rRNA interface [nucleotide binding]; other site 360910000187 putative antibiotic binding site [chemical binding]; other site 360910000188 L25 interface [polypeptide binding]; other site 360910000189 L27 interface [polypeptide binding]; other site 360910000192 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 360910000193 23S rRNA interface [nucleotide binding]; other site 360910000194 putative translocon interaction site; other site 360910000195 signal recognition particle (SRP54) interaction site; other site 360910000196 L23 interface [polypeptide binding]; other site 360910000197 trigger factor interaction site; other site 360910000199 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 360910000201 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 360910000202 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 360910000203 putative active site [active] 360910000204 putative metal binding site [ion binding]; other site 360910000206 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 360910000207 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360910000208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360910000209 Predicted flavoprotein [General function prediction only]; Region: COG0431 360910000210 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 360910000211 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910000212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910000213 NAD(P) binding site [chemical binding]; other site 360910000214 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 360910000215 active site 360910000217 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 360910000218 Transcriptional regulator [Transcription]; Region: IclR; COG1414 360910000219 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360910000220 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 360910000221 tetramerization interface [polypeptide binding]; other site 360910000222 NAD(P) binding site [chemical binding]; other site 360910000223 catalytic residues [active] 360910000224 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 360910000225 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 360910000227 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 360910000228 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 360910000229 RNA binding site [nucleotide binding]; other site 360910000230 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 360910000231 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 360910000232 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 360910000234 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 360910000235 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 360910000239 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 360910000240 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360910000241 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360910000243 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 360910000244 5S rRNA interface [nucleotide binding]; other site 360910000245 L27 interface [polypeptide binding]; other site 360910000246 23S rRNA interface [nucleotide binding]; other site 360910000247 L5 interface [polypeptide binding]; other site 360910000248 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 360910000249 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 360910000250 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 360910000251 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 360910000252 23S rRNA binding site [nucleotide binding]; other site 360910000253 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 360910000254 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 360910000255 SecY translocase; Region: SecY; pfam00344 360910000260 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 360910000261 rRNA binding site [nucleotide binding]; other site 360910000262 predicted 30S ribosome binding site; other site 360910000264 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 360910000266 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 360910000267 30S ribosomal protein S13; Region: bact_S13; TIGR03631 360910000269 30S ribosomal protein S11; Validated; Region: PRK05309 360910000271 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 360910000272 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 360910000273 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 360910000274 RNA binding surface [nucleotide binding]; other site 360910000276 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 360910000277 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 360910000278 alphaNTD homodimer interface [polypeptide binding]; other site 360910000279 alphaNTD - beta interaction site [polypeptide binding]; other site 360910000280 alphaNTD - beta' interaction site [polypeptide binding]; other site 360910000281 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 360910000282 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 360910000284 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 basis...; Region: HIT_like; cl00228 360910000285 nucleotide binding site/active site [active] 360910000286 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 360910000287 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 360910000288 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 360910000289 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 360910000290 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 360910000291 DsbD alpha interface [polypeptide binding]; other site 360910000292 catalytic residues [active] 360910000294 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 360910000295 dimer interface [polypeptide binding]; other site 360910000296 active site 360910000297 aspartate-rich active site metal binding site; other site 360910000298 allosteric magnesium binding site [ion binding]; other site 360910000299 Schiff base residues; other site 360910000301 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 360910000302 G1 box; other site 360910000303 GTP/Mg2+ binding site [chemical binding]; other site 360910000304 Switch I region; other site 360910000305 G2 box; other site 360910000306 G3 box; other site 360910000307 Switch II region; other site 360910000308 G4 box; other site 360910000309 G5 box; other site 360910000311 Cytochrome c; Region: Cytochrom_C; cl11414 360910000312 Cytochrome c553 [Energy production and conversion]; Region: COG2863 360910000315 ResB-like family; Region: ResB; pfam05140 360910000316 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 360910000317 ResB-like family; Region: ResB; pfam05140 360910000318 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 360910000319 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 360910000320 diaminopimelate decarboxylase; Region: lysA; TIGR01048 360910000321 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 360910000322 active site 360910000323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360910000324 substrate binding site [chemical binding]; other site 360910000325 catalytic residues [active] 360910000326 dimer interface [polypeptide binding]; other site 360910000328 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...; Region: Frataxin; cd00503 360910000329 putative iron binding site [ion binding]; other site 360910000330 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 360910000331 Transglycosylase; Region: Transgly; pfam00912 360910000332 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360910000333 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 360910000334 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 360910000335 shikimate kinase; Reviewed; Region: aroK; PRK00131 360910000336 ADP binding site [chemical binding]; other site 360910000337 magnesium binding site [ion binding]; other site 360910000338 putative shikimate binding site; other site 360910000341 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 360910000342 active site 360910000343 dimer interface [polypeptide binding]; other site 360910000344 metal binding site [ion binding]; metal-binding site 360910000346 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 360910000347 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360910000348 Zn2+ binding site [ion binding]; other site 360910000349 Mg2+ binding site [ion binding]; other site 360910000350 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 360910000351 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 360910000352 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 360910000353 putative C-terminal domain interface [polypeptide binding]; other site 360910000354 putative GSH binding site (G-site) [chemical binding]; other site 360910000355 putative dimer interface [polypeptide binding]; other site 360910000356 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 360910000357 putative substrate binding pocket (H-site) [chemical binding]; other site 360910000358 putative N-terminal domain interface [polypeptide binding]; other site 360910000359 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 360910000360 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360910000361 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360910000362 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 360910000368 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 360910000369 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360910000371 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360910000372 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 360910000373 dimer interface [polypeptide binding]; other site 360910000374 ssDNA binding site [nucleotide binding]; other site 360910000375 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360910000378 LPS biosynthesis genes 360910000379 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 360910000380 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 360910000381 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 360910000382 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 360910000383 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 360910000384 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 360910000385 putative active site [active] 360910000386 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360910000387 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 360910000388 Ligand binding site; other site 360910000389 DXD motif; other site 360910000390 Putative Catalytic site; other site 360910000391 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 360910000392 active site 360910000393 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 360910000394 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 360910000395 Ligand Binding Site [chemical binding]; other site 360910000397 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 360910000398 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 360910000399 putative trimer interface [polypeptide binding]; other site 360910000400 putative CoA binding site [chemical binding]; other site 360910000401 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 360910000402 trimer interface [polypeptide binding]; other site 360910000403 active site 360910000404 substrate binding site [chemical binding]; other site 360910000405 CoA binding site [chemical binding]; other site 360910000406 LPS biosynthesis locus 360910000407 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 360910000408 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 360910000409 NAD(P) binding site [chemical binding]; other site 360910000410 homodimer interface [polypeptide binding]; other site 360910000411 substrate binding site [chemical binding]; other site 360910000412 active site 360910000414 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 360910000415 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910000416 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360910000417 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 360910000418 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 360910000419 inhibitor-cofactor binding pocket; inhibition site 360910000420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910000421 catalytic residue [active] 360910000422 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910000423 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 360910000424 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360910000425 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 360910000426 inhibitor-cofactor binding pocket; inhibition site 360910000427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910000428 catalytic residue [active] 360910000429 putative trimer interface [polypeptide binding]; other site 360910000430 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 360910000431 putative CoA binding site [chemical binding]; other site 360910000432 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 360910000433 putative trimer interface [polypeptide binding]; other site 360910000434 putative active site [active] 360910000435 putative substrate binding site [chemical binding]; other site 360910000436 putative CoA binding site [chemical binding]; other site 360910000438 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360910000439 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360910000440 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 360910000441 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910000442 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 360910000443 active site 360910000444 phosphorylation site [posttranslational modification] 360910000445 intermolecular recognition site; other site 360910000446 dimerization interface [polypeptide binding]; other site 360910000447 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910000448 DNA binding site [nucleotide binding] 360910000449 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 360910000450 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910000451 dimer interface [polypeptide binding]; other site 360910000452 phosphorylation site [posttranslational modification] 360910000453 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 360910000454 ATP binding site [chemical binding]; other site 360910000455 Mg2+ binding site [ion binding]; other site 360910000456 G-X-G motif; other site 360910000457 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360910000458 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 360910000460 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 360910000462 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 360910000463 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910000464 dimer interface [polypeptide binding]; other site 360910000465 conserved gate region; other site 360910000466 ABC-ATPase subunit interface; other site 360910000467 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910000468 dimer interface [polypeptide binding]; other site 360910000469 conserved gate region; other site 360910000470 putative PBP binding loops; other site 360910000471 ABC-ATPase subunit interface; other site 360910000474 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 360910000475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910000476 Walker A/P-loop; other site 360910000477 ATP binding site [chemical binding]; other site 360910000478 Q-loop/lid; other site 360910000479 ABC transporter signature motif; other site 360910000480 Walker B; other site 360910000481 D-loop; other site 360910000482 H-loop/switch region; other site 360910000485 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 360910000486 active site 360910000487 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 360910000488 UbiA prenyltransferase family; Region: UbiA; pfam01040 360910000490 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 360910000491 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 360910000492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910000493 homodimer interface [polypeptide binding]; other site 360910000494 catalytic residue [active] 360910000495 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 360910000496 GAF domain; Region: GAF_2; pfam13185 360910000498 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 360910000499 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360910000500 dimer interface [polypeptide binding]; other site 360910000501 active site 360910000502 catalytic residue [active] 360910000506 choline dehydrogenase; Validated; Region: PRK02106 360910000507 lycopene cyclase; Region: lycopene_cycl; TIGR01789 360910000508 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 360910000511 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 360910000512 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 360910000513 Uncharacterized conserved protein [Function unknown]; Region: COG2928 360910000514 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 360910000515 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 360910000516 dimer interface [polypeptide binding]; other site 360910000517 anticodon binding site; other site 360910000518 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 360910000519 homodimer interface [polypeptide binding]; other site 360910000520 motif 1; other site 360910000521 active site 360910000522 motif 2; other site 360910000523 GAD domain; Region: GAD; pfam02938 360910000524 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 360910000525 motif 3; other site 360910000528 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360910000529 putative catalytic site [active] 360910000530 putative metal binding site [ion binding]; other site 360910000531 putative phosphate binding site [ion binding]; other site 360910000532 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 360910000533 putative active site [active] 360910000534 catalytic site [active] 360910000535 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 360910000536 PLD-like domain; Region: PLDc_2; pfam13091 360910000537 putative active site [active] 360910000538 catalytic site [active] 360910000539 EamA-like transporter family; Region: EamA; pfam00892 360910000540 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360910000541 EamA-like transporter family; Region: EamA; pfam00892 360910000542 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 360910000543 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360910000544 putative substrate translocation pore; other site 360910000545 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 360910000546 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 360910000547 putative hydrophobic ligand binding site [chemical binding]; other site 360910000548 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360910000551 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 360910000552 O-Antigen ligase; Region: Wzy_C; pfam04932 360910000553 LPS biosynthesis genes 360910000555 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 360910000556 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 360910000557 NADP binding site [chemical binding]; other site 360910000558 active site 360910000559 putative substrate binding site [chemical binding]; other site 360910000560 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 360910000561 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360910000562 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 360910000563 putative active site [active] 360910000564 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 360910000565 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 360910000566 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 360910000567 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 360910000568 pantothenate kinase; Reviewed; Region: PRK13328 360910000569 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 360910000570 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 360910000571 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 360910000572 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 360910000573 Permease; Region: Permease; pfam02405 360910000574 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 360910000575 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 360910000576 Walker A/P-loop; other site 360910000577 ATP binding site [chemical binding]; other site 360910000578 Q-loop/lid; other site 360910000579 ABC transporter signature motif; other site 360910000580 Walker B; other site 360910000581 D-loop; other site 360910000582 H-loop/switch region; other site 360910000584 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 360910000585 mce related protein; Region: MCE; pfam02470 360910000586 Protein of unknown function (DUF330); Region: DUF330; cl01135 360910000588 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 360910000589 Serine hydrolase (FSH1); Region: FSH1; pfam03959 360910000590 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 360910000591 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 360910000592 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 360910000593 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360910000594 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 360910000595 homodimer interface [polypeptide binding]; other site 360910000596 substrate-cofactor binding pocket; other site 360910000597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910000598 catalytic residue [active] 360910000599 hypothetical protein; Provisional; Region: PRK02047 360910000600 lipoate-protein ligase B; Provisional; Region: PRK14349 360910000602 lipoyl synthase; Provisional; Region: PRK05481 360910000603 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 360910000604 FeS/SAM binding site; other site 360910000605 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 360910000606 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 360910000607 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 360910000608 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910000609 Walker A motif; other site 360910000610 ATP binding site [chemical binding]; other site 360910000611 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 360910000612 Walker B motif; other site 360910000613 arginine finger; other site 360910000614 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360910000616 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 360910000617 active site 360910000618 HslU subunit interaction site [polypeptide binding]; other site 360910000619 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 360910000620 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 360910000621 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 360910000622 P-loop, Walker A motif; other site 360910000623 Base recognition motif; other site 360910000624 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 360910000627 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360910000628 metal binding site 2 [ion binding]; metal-binding site 360910000629 putative DNA binding helix; other site 360910000630 metal binding site 1 [ion binding]; metal-binding site 360910000631 dimer interface [polypeptide binding]; other site 360910000632 structural Zn2+ binding site [ion binding]; other site 360910000633 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 360910000634 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 360910000637 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360910000638 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 360910000639 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 360910000640 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 360910000641 metal binding site [ion binding]; metal-binding site 360910000642 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 360910000643 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 360910000644 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 360910000645 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 360910000646 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 360910000647 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 360910000648 active site 360910000649 DNA binding site [nucleotide binding] 360910000650 Int/Topo IB signature motif; other site 360910000651 Protein of unknown function, DUF484; Region: DUF484; cl17449 360910000652 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 360910000653 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360910000654 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360910000656 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 360910000657 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 360910000658 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360910000659 putative acyl-acceptor binding pocket; other site 360910000660 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360910000661 putative acyl-acceptor binding pocket; other site 360910000662 S-adenosylmethionine synthetase; Validated; Region: PRK05250 360910000663 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 360910000664 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 360910000665 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 360910000668 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 360910000669 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 360910000670 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 360910000671 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 360910000672 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 360910000673 homotetramer interface [polypeptide binding]; other site 360910000674 ligand binding site [chemical binding]; other site 360910000675 catalytic site [active] 360910000676 NAD binding site [chemical binding]; other site 360910000679 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 360910000680 FAD binding site [chemical binding]; other site 360910000681 hypothetical protein; Provisional; Region: PRK05409 360910000682 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 360910000683 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 360910000684 Predicted membrane protein [Function unknown]; Region: COG2259 360910000685 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 360910000686 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 360910000687 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360910000688 catalytic residue [active] 360910000689 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13297 360910000690 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 360910000691 active site 360910000692 NTP binding site [chemical binding]; other site 360910000693 metal binding triad [ion binding]; metal-binding site 360910000694 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 360910000695 Uncharacterized conserved protein [Function unknown]; Region: COG1565 360910000696 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 360910000697 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 360910000698 ATP binding site [chemical binding]; other site 360910000699 Mg++ binding site [ion binding]; other site 360910000700 motif III; other site 360910000701 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 360910000702 nucleotide binding region [chemical binding]; other site 360910000703 ATP-binding site [chemical binding]; other site 360910000705 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 360910000706 ligand binding site [chemical binding]; other site 360910000707 active site 360910000708 UGI interface [polypeptide binding]; other site 360910000709 catalytic site [active] 360910000711 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 360910000712 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 360910000713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910000714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910000715 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 360910000716 dimerization interface [polypeptide binding]; other site 360910000718 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 360910000719 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 360910000720 putative substrate translocation pore; other site 360910000721 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 360910000722 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 360910000723 nucleotide binding site/active site [active] 360910000724 HIT family signature motif; other site 360910000725 catalytic residue [active] 360910000726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910000727 Coenzyme A binding pocket [chemical binding]; other site 360910000728 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 360910000729 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 360910000730 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 360910000731 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 360910000732 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 360910000733 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360910000734 acyl-activating enzyme (AAE) consensus motif; other site 360910000735 active site 360910000736 AMP binding site [chemical binding]; other site 360910000737 CoA binding site [chemical binding]; other site 360910000738 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910000739 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910000740 Walker A/P-loop; other site 360910000741 ATP binding site [chemical binding]; other site 360910000742 Q-loop/lid; other site 360910000743 ABC transporter signature motif; other site 360910000744 Walker B; other site 360910000745 D-loop; other site 360910000746 H-loop/switch region; other site 360910000748 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 360910000749 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 360910000750 putative ligand binding site [chemical binding]; other site 360910000751 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910000752 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 360910000753 TM-ABC transporter signature motif; other site 360910000754 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 360910000755 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910000756 TM-ABC transporter signature motif; other site 360910000757 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910000758 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910000759 Walker A/P-loop; other site 360910000760 ATP binding site [chemical binding]; other site 360910000761 Q-loop/lid; other site 360910000762 ABC transporter signature motif; other site 360910000763 Walker B; other site 360910000764 D-loop; other site 360910000765 H-loop/switch region; other site 360910000767 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 360910000768 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360910000769 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 360910000770 acyl-activating enzyme (AAE) consensus motif; other site 360910000771 putative AMP binding site [chemical binding]; other site 360910000772 putative active site [active] 360910000773 putative CoA binding site [chemical binding]; other site 360910000776 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360910000777 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 360910000778 ligand binding site [chemical binding]; other site 360910000779 flexible hinge region; other site 360910000780 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 360910000781 LysE type translocator; Region: LysE; cl00565 360910000782 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 360910000783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910000784 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 360910000785 dimerization interface [polypeptide binding]; other site 360910000786 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 360910000787 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 360910000788 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 360910000790 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910000791 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 360910000792 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360910000793 catalytic residue [active] 360910000794 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 360910000795 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 360910000796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910000797 homodimer interface [polypeptide binding]; other site 360910000798 catalytic residue [active] 360910000799 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 360910000800 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910000801 substrate binding pocket [chemical binding]; other site 360910000802 membrane-bound complex binding site; other site 360910000803 hinge residues; other site 360910000806 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 360910000807 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 360910000808 active site 360910000809 catalytic residues [active] 360910000810 metal binding site [ion binding]; metal-binding site 360910000812 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 360910000813 DNA protecting protein DprA; Region: dprA; TIGR00732 360910000814 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 360910000815 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 360910000816 active site 360910000817 phosphorylation site [posttranslational modification] 360910000818 intermolecular recognition site; other site 360910000819 dimerization interface [polypeptide binding]; other site 360910000820 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 360910000821 DNA binding residues [nucleotide binding] 360910000822 dimerization interface [polypeptide binding]; other site 360910000823 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910000824 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 360910000825 putative DNA binding site [nucleotide binding]; other site 360910000826 putative Zn2+ binding site [ion binding]; other site 360910000827 AsnC family; Region: AsnC_trans_reg; pfam01037 360910000828 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 360910000829 kynureninase; Region: kynureninase; TIGR01814 360910000830 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360910000831 catalytic residue [active] 360910000832 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 360910000833 active site 360910000834 catalytic residues [active] 360910000835 metal binding site [ion binding]; metal-binding site 360910000836 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 360910000837 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 360910000838 putative active site [active] 360910000839 substrate binding site [chemical binding]; other site 360910000840 putative cosubstrate binding site; other site 360910000841 catalytic site [active] 360910000842 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 360910000843 substrate binding site [chemical binding]; other site 360910000845 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 360910000846 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 360910000847 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 360910000848 motif II; other site 360910000849 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 360910000850 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 360910000851 CoA-transferase family III; Region: CoA_transf_3; pfam02515 360910000852 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 360910000853 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360910000854 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 360910000855 FeS/SAM binding site; other site 360910000857 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 360910000858 non-specific DNA binding site [nucleotide binding]; other site 360910000859 salt bridge; other site 360910000860 sequence-specific DNA binding site [nucleotide binding]; other site 360910000861 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 360910000862 Transcriptional regulator [Transcription]; Region: IclR; COG1414 360910000863 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 360910000864 Bacterial transcriptional regulator; Region: IclR; pfam01614 360910000865 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360910000866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910000867 NAD(P) binding site [chemical binding]; other site 360910000868 active site 360910000870 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910000871 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910000873 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 360910000874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 360910000875 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 360910000876 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 360910000877 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 360910000879 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910000880 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 360910000881 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 360910000882 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 360910000883 aldolase II superfamily protein; Provisional; Region: PRK07044 360910000884 active site 360910000885 intersubunit interface [polypeptide binding]; other site 360910000886 Zn2+ binding site [ion binding]; other site 360910000887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910000888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910000889 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 360910000890 dimerization interface [polypeptide binding]; other site 360910000891 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 360910000892 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910000893 DNA-binding site [nucleotide binding]; DNA binding site 360910000894 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 360910000895 acyl-CoA synthetase; Validated; Region: PRK06164 360910000896 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360910000897 acyl-activating enzyme (AAE) consensus motif; other site 360910000898 AMP binding site [chemical binding]; other site 360910000899 active site 360910000900 CoA binding site [chemical binding]; other site 360910000904 Putative cyclase; Region: Cyclase; pfam04199 360910000905 Putative cyclase; Region: Cyclase; cl00814 360910000906 short chain dehydrogenase; Provisional; Region: PRK07577 360910000907 classical (c) SDRs; Region: SDR_c; cd05233 360910000908 NAD(P) binding site [chemical binding]; other site 360910000909 active site 360910000911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360910000912 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 360910000913 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360910000914 active site 360910000916 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360910000917 16S rRNA methyltransferase B; Provisional; Region: PRK10901 360910000918 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 360910000919 S-adenosylmethionine binding site [chemical binding]; other site 360910000921 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 360910000922 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 360910000923 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910000924 dimerization interface [polypeptide binding]; other site 360910000925 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910000926 dimer interface [polypeptide binding]; other site 360910000927 phosphorylation site [posttranslational modification] 360910000928 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 360910000929 ATP binding site [chemical binding]; other site 360910000930 Mg2+ binding site [ion binding]; other site 360910000931 G-X-G motif; other site 360910000932 Response regulator receiver domain; Region: Response_reg; pfam00072 360910000933 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 360910000934 active site 360910000935 phosphorylation site [posttranslational modification] 360910000936 intermolecular recognition site; other site 360910000937 dimerization interface [polypeptide binding]; other site 360910000938 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 360910000939 TrkA-N domain; Region: TrkA_N; pfam02254 360910000940 TrkA-C domain; Region: TrkA_C; pfam02080 360910000941 TrkA-N domain; Region: TrkA_N; pfam02254 360910000942 TrkA-C domain; Region: TrkA_C; pfam02080 360910000943 Cation transport protein; Region: TrkH; cl17365 360910000944 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 360910000945 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 360910000946 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 360910000947 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 360910000948 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 360910000949 S-adenosylmethionine binding site [chemical binding]; other site 360910000950 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 360910000952 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 360910000954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360910000955 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 360910000956 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 360910000957 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 360910000959 preprotein translocase subunit SecB; Validated; Region: PRK05751 360910000960 SecA binding site; other site 360910000961 Preprotein binding site; other site 360910000962 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 360910000963 GSH binding site [chemical binding]; other site 360910000964 catalytic residues [active] 360910000966 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 360910000967 active site residue [active] 360910000968 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 360910000969 catalytic core [active] 360910000970 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 360910000972 Peptidase family M23; Region: Peptidase_M23; pfam01551 360910000973 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 360910000974 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 360910000975 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 360910000976 protein binding site [polypeptide binding]; other site 360910000977 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 360910000978 Catalytic dyad [active] 360910000979 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 360910000980 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 360910000981 ATP binding site [chemical binding]; other site 360910000982 substrate interface [chemical binding]; other site 360910000983 Transcriptional regulators [Transcription]; Region: FadR; COG2186 360910000984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910000985 DNA-binding site [nucleotide binding]; DNA binding site 360910000986 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 360910000987 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 360910000988 FAD binding domain; Region: FAD_binding_4; pfam01565 360910000990 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 360910000991 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 360910000992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910000993 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 360910000994 dimerization interface [polypeptide binding]; other site 360910000996 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 360910000997 ThiC-associated domain; Region: ThiC-associated; pfam13667 360910000998 ThiC family; Region: ThiC; pfam01964 360910000999 hypothetical protein; Provisional; Region: PRK14561 360910001000 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 360910001001 non-specific DNA binding site [nucleotide binding]; other site 360910001002 salt bridge; other site 360910001003 sequence-specific DNA binding site [nucleotide binding]; other site 360910001004 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 360910001005 non-specific DNA binding site [nucleotide binding]; other site 360910001006 salt bridge; other site 360910001007 sequence-specific DNA binding site [nucleotide binding]; other site 360910001008 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 360910001009 DNA binding site [nucleotide binding] 360910001010 gamma-glutamyl kinase; Provisional; Region: PRK05429 360910001011 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 360910001012 nucleotide binding site [chemical binding]; other site 360910001013 homotetrameric interface [polypeptide binding]; other site 360910001014 putative phosphate binding site [ion binding]; other site 360910001015 putative allosteric binding site; other site 360910001016 PUA domain; Region: PUA; pfam01472 360910001019 GTPase CgtA; Reviewed; Region: obgE; PRK12299 360910001020 GTP1/OBG; Region: GTP1_OBG; pfam01018 360910001021 Obg GTPase; Region: Obg; cd01898 360910001022 G1 box; other site 360910001023 GTP/Mg2+ binding site [chemical binding]; other site 360910001024 Switch I region; other site 360910001025 G2 box; other site 360910001026 G3 box; other site 360910001027 Switch II region; other site 360910001028 G4 box; other site 360910001029 G5 box; other site 360910001032 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 360910001034 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 360910001035 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 360910001037 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360910001038 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360910001039 substrate binding pocket [chemical binding]; other site 360910001040 chain length determination region; other site 360910001041 substrate-Mg2+ binding site; other site 360910001042 catalytic residues [active] 360910001043 aspartate-rich region 1; other site 360910001044 active site lid residues [active] 360910001045 aspartate-rich region 2; other site 360910001048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 360910001049 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360910001050 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910001051 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 360910001052 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 360910001053 active site 360910001054 nucleophile elbow; other site 360910001055 Patatin phospholipase; Region: DUF3734; pfam12536 360910001056 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 360910001057 classical (c) SDRs; Region: SDR_c; cd05233 360910001058 NAD(P) binding site [chemical binding]; other site 360910001059 active site 360910001061 acetoacetate decarboxylase; Provisional; Region: PRK02265 360910001062 Protein of unknown function (DUF770); Region: DUF770; pfam05591 360910001063 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 360910001064 Protein of unknown function (DUF877); Region: DUF877; pfam05943 360910001065 Protein of unknown function (DUF796); Region: DUF796; pfam05638 360910001066 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 360910001067 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 360910001068 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 360910001069 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 360910001070 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 360910001071 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910001072 Walker A motif; other site 360910001073 ATP binding site [chemical binding]; other site 360910001074 Walker B motif; other site 360910001075 arginine finger; other site 360910001076 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910001077 Walker A motif; other site 360910001078 ATP binding site [chemical binding]; other site 360910001079 Walker B motif; other site 360910001080 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360910001084 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 360910001085 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 360910001086 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 360910001087 Ectoine synthase; Region: Ectoine_synth; cl17598 360910001088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 360910001089 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 360910001090 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910001091 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360910001092 substrate binding pocket [chemical binding]; other site 360910001093 membrane-bound complex binding site; other site 360910001094 hinge residues; other site 360910001096 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360910001097 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 360910001098 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 360910001099 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360910001101 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 360910001102 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 360910001103 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 360910001104 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 360910001105 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 360910001106 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 360910001107 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 360910001108 Amidase; Region: Amidase; pfam01425 360910001111 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 360910001112 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_5; cd06338 360910001113 putative ligand binding site [chemical binding]; other site 360910001114 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 360910001115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910001116 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 360910001117 putative dimerization interface [polypeptide binding]; other site 360910001118 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910001119 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 360910001120 TM-ABC transporter signature motif; other site 360910001121 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 360910001122 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910001123 TM-ABC transporter signature motif; other site 360910001125 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910001126 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910001127 Walker A/P-loop; other site 360910001128 ATP binding site [chemical binding]; other site 360910001129 Q-loop/lid; other site 360910001130 ABC transporter signature motif; other site 360910001131 Walker B; other site 360910001132 D-loop; other site 360910001133 H-loop/switch region; other site 360910001136 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910001137 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910001138 Walker A/P-loop; other site 360910001139 ATP binding site [chemical binding]; other site 360910001140 Q-loop/lid; other site 360910001141 ABC transporter signature motif; other site 360910001142 Walker B; other site 360910001143 D-loop; other site 360910001144 H-loop/switch region; other site 360910001146 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 360910001147 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360910001148 active site 360910001149 metal binding site [ion binding]; metal-binding site 360910001150 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360910001151 EamA-like transporter family; Region: EamA; pfam00892 360910001152 Cupin domain; Region: Cupin_2; cl17218 360910001153 Helix-turn-helix domain; Region: HTH_18; pfam12833 360910001154 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910001156 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 360910001157 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 360910001158 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 360910001159 tRNA; other site 360910001160 putative tRNA binding site [nucleotide binding]; other site 360910001161 putative NADP binding site [chemical binding]; other site 360910001162 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 360910001164 peptide chain release factor 1; Validated; Region: prfA; PRK00591 360910001165 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360910001166 RF-1 domain; Region: RF-1; pfam00472 360910001167 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 360910001168 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 360910001169 S-adenosylmethionine binding site [chemical binding]; other site 360910001171 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 360910001172 putative GSH binding site [chemical binding]; other site 360910001173 catalytic residues [active] 360910001174 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 360910001175 Flavoprotein; Region: Flavoprotein; pfam02441 360910001176 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 360910001177 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 360910001178 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 360910001179 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 360910001181 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 360910001182 active site clefts [active] 360910001183 zinc binding site [ion binding]; other site 360910001184 dimer interface [polypeptide binding]; other site 360910001185 Putative cyclase; Region: Cyclase; pfam04199 360910001186 Putative cyclase; Region: Cyclase; cl00814 360910001187 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 360910001188 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 360910001189 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 360910001191 YciI-like protein; Reviewed; Region: PRK12863 360910001192 Muconolactone delta-isomerase; Region: MIase; cl01992 360910001193 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 360910001194 Coenzyme A transferase; Region: CoA_trans; cl17247 360910001195 short chain dehydrogenase; Provisional; Region: PRK07577 360910001196 classical (c) SDRs; Region: SDR_c; cd05233 360910001197 NAD(P) binding site [chemical binding]; other site 360910001198 active site 360910001200 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 360910001201 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 360910001202 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 360910001203 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 360910001204 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910001205 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910001206 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910001207 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910001208 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 360910001210 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 360910001211 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360910001212 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 360910001213 Ligand Binding Site [chemical binding]; other site 360910001214 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 360910001215 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 360910001219 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910001220 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 360910001221 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 360910001222 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 360910001223 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360910001225 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 360910001226 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360910001227 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360910001228 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910001229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910001230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910001231 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 360910001232 putative effector binding pocket; other site 360910001233 putative dimerization interface [polypeptide binding]; other site 360910001235 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 360910001236 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360910001237 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 360910001238 voltage-gated potassium channel; Provisional; Region: PRK10537 360910001239 Ion channel; Region: Ion_trans_2; pfam07885 360910001240 TrkA-N domain; Region: TrkA_N; pfam02254 360910001241 Type II secretion pathway 360910001242 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 360910001243 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 360910001244 type II secretion system protein F; Region: GspF; TIGR02120 360910001245 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360910001246 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360910001247 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 360910001248 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 360910001249 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 360910001250 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360910001251 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360910001253 type II secretion system protein E; Region: type_II_gspE; TIGR02533 360910001254 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 360910001255 Walker A motif; other site 360910001256 ATP binding site [chemical binding]; other site 360910001257 Walker B motif; other site 360910001260 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 360910001261 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 360910001262 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 360910001263 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 360910001265 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 360910001267 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 360910001268 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 360910001269 Type II transport protein GspH; Region: GspH; pfam12019 360910001270 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 360910001271 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 360910001272 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 360910001274 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 360910001276 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 360910001277 amino acid transporter; Region: 2A0306; TIGR00909 360910001278 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 360910001279 Fasciclin domain; Region: Fasciclin; pfam02469 360910001281 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 360910001283 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 360910001284 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 360910001285 putative active site [active] 360910001286 heme pocket [chemical binding]; other site 360910001287 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 360910001288 putative active site [active] 360910001289 heme pocket [chemical binding]; other site 360910001290 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910001291 dimer interface [polypeptide binding]; other site 360910001292 putative CheW interface [polypeptide binding]; other site 360910001293 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 360910001296 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 360910001297 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 360910001298 DNA binding residues [nucleotide binding] 360910001299 B12 binding domain; Region: B12-binding_2; pfam02607 360910001300 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 360910001301 B12 binding site [chemical binding]; other site 360910001302 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910001303 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 360910001304 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 360910001305 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910001306 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 360910001307 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 360910001308 trimer interface [polypeptide binding]; other site 360910001309 eyelet of channel; other site 360910001310 Restriction endonuclease; Region: Mrr_cat; pfam04471 360910001311 Protein with unknown function (DUF469); Region: DUF469; pfam04320 360910001312 Fic family protein [Function unknown]; Region: COG3177 360910001313 Fic/DOC family; Region: Fic; pfam02661 360910001314 integrated plasmid 360910001315 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 360910001316 active site 360910001317 NTP binding site [chemical binding]; other site 360910001318 metal binding triad [ion binding]; metal-binding site 360910001319 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 360910001321 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910001322 AAA domain; Region: AAA_23; pfam13476 360910001323 Walker A/P-loop; other site 360910001324 ATP binding site [chemical binding]; other site 360910001325 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 360910001326 putative active site [active] 360910001327 putative metal-binding site [ion binding]; other site 360910001329 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 360910001330 FIC domain binding interface [polypeptide binding]; other site 360910001331 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 360910001333 conjugal transfer protein 360910001334 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 360910001335 plasmid-related protein 360910001337 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 360910001338 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360910001339 active site 360910001340 metal binding site [ion binding]; metal-binding site 360910001341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 360910001342 Transposase; Region: DDE_Tnp_ISL3; pfam01610 360910001343 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 360910001344 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 360910001345 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 360910001346 ATP binding site [chemical binding]; other site 360910001347 putative Mg++ binding site [ion binding]; other site 360910001348 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 360910001349 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360910001350 HsdM N-terminal domain; Region: HsdM_N; pfam12161 360910001351 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 360910001352 Methyltransferase domain; Region: Methyltransf_26; pfam13659 360910001355 integrase 360910001356 prophage 1. Shares few genes (on the right arm) with the Bordetella phage that undergoes tropism switching 360910001357 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 360910001358 active site 360910001359 DNA binding site [nucleotide binding] 360910001360 Int/Topo IB signature motif; other site 360910001361 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 360910001362 restriction alleviation protein, Lar family; Region: anti_R_Lar; TIGR03655 360910001363 recombination associated protein; Reviewed; Region: rdgC; PRK00321 360910001364 RecT family; Region: RecT; cl04285 360910001365 exonuclease VIII; Reviewed; Region: PRK09709 360910001367 Prophage antirepressor [Transcription]; Region: COG3617 360910001368 BRO family, N-terminal domain; Region: Bro-N; smart01040 360910001369 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 360910001371 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 360910001372 Divergent AAA domain; Region: AAA_4; pfam04326 360910001373 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 360910001374 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 360910001375 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 360910001376 non-specific DNA binding site [nucleotide binding]; other site 360910001377 salt bridge; other site 360910001378 sequence-specific DNA binding site [nucleotide binding]; other site 360910001379 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 360910001380 Predicted transcriptional regulator [Transcription]; Region: COG2932 360910001381 Catalytic site [active] 360910001382 BssS protein family; Region: BssS; pfam13991 360910001384 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 360910001385 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 360910001386 hypothetical protein; Region: PHA00675 360910001388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910001389 Coenzyme A binding pocket [chemical binding]; other site 360910001390 hypothetical protein; Region: PHA00672 360910001391 hypothetical protein; Region: PHA00671 360910001393 hypothetical protein; Region: PHA00670 360910001394 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 360910001395 putative protease; Region: PHA00666 360910001396 major capsid protein; Region: PHA00665 360910001397 hypothetical protein; Region: PHA00664 360910001398 hypothetical protein; Region: PHA00663 360910001399 hypothetical protein; Region: PHA00662 360910001400 hypothetical protein; Region: PHA00661 360910001402 hypothetical protein; Region: PHA00660 360910001404 putative lysin; Region: PHA00658 360910001405 Phage tail repeat like; Region: PTR; pfam12789 360910001406 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 360910001407 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 360910001408 catalytic residue [active] 360910001409 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 360910001410 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 360910001411 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 360910001412 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360910001413 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 360910001414 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 360910001415 tetramer interface [polypeptide binding]; other site 360910001416 heme binding pocket [chemical binding]; other site 360910001419 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 360910001422 heat shock protein 90; Provisional; Region: PRK05218 360910001423 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 360910001424 ATP binding site [chemical binding]; other site 360910001425 Mg2+ binding site [ion binding]; other site 360910001426 G-X-G motif; other site 360910001428 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 360910001429 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 360910001430 putative C-terminal domain interface [polypeptide binding]; other site 360910001431 putative GSH binding site (G-site) [chemical binding]; other site 360910001432 putative dimer interface [polypeptide binding]; other site 360910001433 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 360910001434 putative N-terminal domain interface [polypeptide binding]; other site 360910001435 putative dimer interface [polypeptide binding]; other site 360910001436 putative substrate binding pocket (H-site) [chemical binding]; other site 360910001437 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 360910001438 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 360910001439 substrate binding site [chemical binding]; other site 360910001440 amidase catalytic site [active] 360910001441 Zn binding residues [ion binding]; other site 360910001442 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 360910001443 signal recognition particle protein; Provisional; Region: PRK10867 360910001444 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 360910001445 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 360910001446 GTP binding site [chemical binding]; other site 360910001447 Signal peptide binding domain; Region: SRP_SPB; pfam02978 360910001451 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 360910001452 thiS-thiF/thiG interaction site; other site 360910001453 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 360910001455 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 360910001456 S-adenosylmethionine binding site [chemical binding]; other site 360910001457 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 360910001458 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910001459 DNA-binding site [nucleotide binding]; DNA binding site 360910001460 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 360910001461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910001462 homodimer interface [polypeptide binding]; other site 360910001463 catalytic residue [active] 360910001464 N-formylglutamate amidohydrolase; Region: FGase; cl01522 360910001465 ornithine cyclodeaminase; Validated; Region: PRK07589 360910001466 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 360910001468 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 360910001469 acetylornithine deacetylase; Provisional; Region: PRK06837 360910001470 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 360910001471 metal binding site [ion binding]; metal-binding site 360910001472 dimer interface [polypeptide binding]; other site 360910001473 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 360910001474 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 360910001475 active site 360910001476 ATP binding site [chemical binding]; other site 360910001477 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 360910001478 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 360910001479 inhibitor-cofactor binding pocket; inhibition site 360910001480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910001481 catalytic residue [active] 360910001483 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910001484 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 360910001485 putative DNA binding site [nucleotide binding]; other site 360910001486 putative Zn2+ binding site [ion binding]; other site 360910001487 AsnC family; Region: AsnC_trans_reg; pfam01037 360910001488 arginase 360910001492 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910001493 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 360910001494 Autotransporter beta-domain; Region: Autotransporter; pfam03797 360910001495 lipid A 1-phosphatase; Reviewed; Region: PRK09597 360910001496 active site 360910001497 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 360910001498 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 360910001499 Sulfatase; Region: Sulfatase; pfam00884 360910001500 META domain; Region: META; pfam03724 360910001502 META domain; Region: META; pfam03724 360910001504 rhodanese superfamily protein; Provisional; Region: PRK05320 360910001505 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 360910001506 active site residue [active] 360910001507 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 360910001508 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 360910001509 active site 360910001510 HIGH motif; other site 360910001511 KMSKS motif; other site 360910001512 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 360910001513 tRNA binding surface [nucleotide binding]; other site 360910001514 anticodon binding site; other site 360910001515 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 360910001516 dimer interface [polypeptide binding]; other site 360910001517 putative tRNA-binding site [nucleotide binding]; other site 360910001519 Domain of unknown function DUF59; Region: DUF59; pfam01883 360910001520 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360910001521 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 360910001524 Surface antigen; Region: Bac_surface_Ag; pfam01103 360910001525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 360910001526 Family of unknown function (DUF490); Region: DUF490; pfam04357 360910001528 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360910001529 trimer interface [polypeptide binding]; other site 360910001530 active site 360910001531 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 360910001532 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910001533 Coenzyme A binding pocket [chemical binding]; other site 360910001534 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 360910001535 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 360910001536 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 360910001537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360910001538 catalytic residue [active] 360910001539 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 360910001541 Predicted flavoproteins [General function prediction only]; Region: COG2081 360910001542 Transcriptional regulators [Transcription]; Region: PurR; COG1609 360910001543 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 360910001544 DNA binding site [nucleotide binding] 360910001545 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 360910001546 putative dimerization interface [polypeptide binding]; other site 360910001547 putative ligand binding site [chemical binding]; other site 360910001549 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360910001550 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 360910001551 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 360910001552 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910001553 TM-ABC transporter signature motif; other site 360910001555 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 360910001556 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910001557 TM-ABC transporter signature motif; other site 360910001558 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910001559 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910001560 Walker A/P-loop; other site 360910001561 ATP binding site [chemical binding]; other site 360910001562 Q-loop/lid; other site 360910001563 ABC transporter signature motif; other site 360910001564 Walker B; other site 360910001565 D-loop; other site 360910001566 H-loop/switch region; other site 360910001568 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910001569 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910001570 Walker A/P-loop; other site 360910001571 ATP binding site [chemical binding]; other site 360910001572 Q-loop/lid; other site 360910001573 ABC transporter signature motif; other site 360910001574 Walker B; other site 360910001575 D-loop; other site 360910001576 H-loop/switch region; other site 360910001579 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 360910001580 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360910001581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910001582 NAD(P) binding site [chemical binding]; other site 360910001583 active site 360910001585 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 360910001586 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 360910001587 active site 360910001588 metal binding site [ion binding]; metal-binding site 360910001589 dimer interface [polypeptide binding]; other site 360910001591 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 360910001592 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 360910001593 putative NAD(P) binding site [chemical binding]; other site 360910001594 catalytic Zn binding site [ion binding]; other site 360910001596 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 360910001597 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 360910001598 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 360910001599 lipoyl attachment site [posttranslational modification]; other site 360910001600 glycine dehydrogenase; Provisional; Region: PRK05367 360910001601 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 360910001602 tetramer interface [polypeptide binding]; other site 360910001603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910001604 catalytic residue [active] 360910001605 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 360910001606 tetramer interface [polypeptide binding]; other site 360910001607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910001608 catalytic residue [active] 360910001609 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 360910001610 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 360910001611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 360910001612 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 360910001613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 360910001614 Uncharacterized conserved protein [Function unknown]; Region: COG5476 360910001615 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 360910001616 MlrC C-terminus; Region: MlrC_C; pfam07171 360910001618 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 360910001619 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910001620 Walker A/P-loop; other site 360910001621 ATP binding site [chemical binding]; other site 360910001622 Q-loop/lid; other site 360910001623 ABC transporter signature motif; other site 360910001624 Walker B; other site 360910001625 D-loop; other site 360910001626 H-loop/switch region; other site 360910001627 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 360910001628 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910001629 Walker A/P-loop; other site 360910001630 ATP binding site [chemical binding]; other site 360910001631 Q-loop/lid; other site 360910001632 ABC transporter signature motif; other site 360910001633 Walker B; other site 360910001634 D-loop; other site 360910001635 H-loop/switch region; other site 360910001636 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910001641 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 360910001642 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910001643 dimer interface [polypeptide binding]; other site 360910001644 conserved gate region; other site 360910001645 putative PBP binding loops; other site 360910001646 ABC-ATPase subunit interface; other site 360910001648 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910001649 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910001650 dimer interface [polypeptide binding]; other site 360910001651 conserved gate region; other site 360910001652 putative PBP binding loops; other site 360910001653 ABC-ATPase subunit interface; other site 360910001655 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 360910001656 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 360910001657 Uncharacterized conserved protein [Function unknown]; Region: COG5476 360910001658 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 360910001659 MlrC C-terminus; Region: MlrC_C; pfam07171 360910001660 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 360910001661 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 360910001662 tetrameric interface [polypeptide binding]; other site 360910001663 NAD binding site [chemical binding]; other site 360910001664 catalytic residues [active] 360910001666 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 360910001667 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 360910001668 inhibitor-cofactor binding pocket; inhibition site 360910001669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910001670 catalytic residue [active] 360910001672 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 360910001673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910001674 DNA-binding site [nucleotide binding]; DNA binding site 360910001675 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 360910001676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910001677 homodimer interface [polypeptide binding]; other site 360910001678 catalytic residue [active] 360910001679 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 360910001680 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 360910001681 folate binding site [chemical binding]; other site 360910001682 NADP+ binding site [chemical binding]; other site 360910001684 thymidylate synthase; Provisional; Region: thyA; PRK13821 360910001685 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 360910001686 dimerization interface [polypeptide binding]; other site 360910001687 active site 360910001688 OsmC-like protein; Region: OsmC; cl00767 360910001689 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 360910001690 diiron binding motif [ion binding]; other site 360910001691 Locus possibly encoding a lipopolysaccharide O-antigen 360910001692 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, which...; Region: GT_MraY_like; cd06912 360910001693 Mg++ binding site [ion binding]; other site 360910001694 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 360910001695 putative catalytic motif [active] 360910001696 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 360910001697 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360910001698 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 360910001699 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 360910001700 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 360910001701 NAD binding site [chemical binding]; other site 360910001702 substrate binding site [chemical binding]; other site 360910001703 homodimer interface [polypeptide binding]; other site 360910001704 active site 360910001705 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 360910001706 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910001707 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 360910001708 putative ADP-binding pocket [chemical binding]; other site 360910001709 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 360910001710 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 360910001711 active site 360910001712 dimer interface [polypeptide binding]; other site 360910001713 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 360910001714 Ligand Binding Site [chemical binding]; other site 360910001715 Molecular Tunnel; other site 360910001717 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 360910001718 putative ADP-binding pocket [chemical binding]; other site 360910001719 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910001720 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 360910001721 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 360910001722 putative ADP-binding pocket [chemical binding]; other site 360910001723 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 360910001724 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910001725 putative ADP-binding pocket [chemical binding]; other site 360910001726 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 360910001727 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 360910001728 active site 360910001729 dimer interface [polypeptide binding]; other site 360910001730 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 360910001731 dimer interface [polypeptide binding]; other site 360910001732 active site 360910001736 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 360910001737 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 360910001738 active site 360910001739 substrate binding site [chemical binding]; other site 360910001740 metal binding site [ion binding]; metal-binding site 360910001742 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360910001743 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 360910001744 FAD binding domain; Region: FAD_binding_4; pfam01565 360910001745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910001746 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 360910001747 active site 360910001748 phosphorylation site [posttranslational modification] 360910001749 intermolecular recognition site; other site 360910001750 dimerization interface [polypeptide binding]; other site 360910001751 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910001752 DNA binding site [nucleotide binding] 360910001753 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360910001754 HAMP domain; Region: HAMP; pfam00672 360910001755 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910001756 dimer interface [polypeptide binding]; other site 360910001757 phosphorylation site [posttranslational modification] 360910001758 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 360910001759 ATP binding site [chemical binding]; other site 360910001760 Mg2+ binding site [ion binding]; other site 360910001761 G-X-G motif; other site 360910001762 Transcriptional regulators [Transcription]; Region: FadR; COG2186 360910001763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910001764 DNA-binding site [nucleotide binding]; DNA binding site 360910001765 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 360910001767 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 360910001768 Sulfatase; Region: Sulfatase; pfam00884 360910001769 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 360910001770 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 360910001771 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360910001772 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 360910001773 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 360910001774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910001775 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 360910001776 substrate binding pocket [chemical binding]; other site 360910001777 dimerization interface [polypeptide binding]; other site 360910001779 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 360910001780 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 360910001781 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360910001782 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 360910001783 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 360910001784 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 360910001785 DNA binding site [nucleotide binding] 360910001786 catalytic residue [active] 360910001787 H2TH interface [polypeptide binding]; other site 360910001788 putative catalytic residues [active] 360910001789 turnover-facilitating residue; other site 360910001790 intercalation triad [nucleotide binding]; other site 360910001791 8OG recognition residue [nucleotide binding]; other site 360910001792 putative reading head residues; other site 360910001793 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 360910001794 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 360910001796 TPR repeat; Region: TPR_11; pfam13414 360910001797 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 360910001798 binding surface 360910001799 TPR motif; other site 360910001800 TPR repeat; Region: TPR_11; pfam13414 360910001801 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 360910001802 TPR motif; other site 360910001803 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 360910001804 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 360910001805 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 360910001806 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360910001807 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 360910001808 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 360910001809 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 360910001810 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360910001811 active site 360910001815 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 360910001816 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 360910001817 5S rRNA interface [nucleotide binding]; other site 360910001818 CTC domain interface [polypeptide binding]; other site 360910001819 L16 interface [polypeptide binding]; other site 360910001820 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 360910001821 putative active site [active] 360910001822 catalytic residue [active] 360910001825 CAAX protease self-immunity; Region: Abi; pfam02517 360910001826 GTP-binding protein YchF; Reviewed; Region: PRK09601 360910001827 YchF GTPase; Region: YchF; cd01900 360910001828 G1 box; other site 360910001829 GTP/Mg2+ binding site [chemical binding]; other site 360910001830 Switch I region; other site 360910001831 G2 box; other site 360910001832 Switch II region; other site 360910001833 G3 box; other site 360910001834 G4 box; other site 360910001835 G5 box; other site 360910001836 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 360910001839 Low 4096C region. Laterally acquired genomic island. 360910001840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2958 360910001841 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 360910001842 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 360910001843 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 360910001844 ATP binding site [chemical binding]; other site 360910001845 putative Mg++ binding site [ion binding]; other site 360910001846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910001847 Q-loop/lid; other site 360910001848 Walker B; other site 360910001849 D-loop; other site 360910001850 H-loop/switch region; other site 360910001852 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360910001853 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360910001854 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360910001855 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 360910001856 HsdM N-terminal domain; Region: HsdM_N; pfam12161 360910001857 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 360910001858 S-adenosylmethionine binding site [chemical binding]; other site 360910001860 DNA binding domain, excisionase family; Region: excise; TIGR01764 360910001861 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910001862 MarR family; Region: MarR_2; pfam12802 360910001864 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 360910001865 homotrimer interaction site [polypeptide binding]; other site 360910001866 putative active site [active] 360910001867 The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol; Region: 2A5CPDO_B; cd07372 360910001868 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 360910001869 putative active site [active] 360910001870 putative metal binding site [ion binding]; other site 360910001871 The alpha subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol; Region: 2A5CPDO_A; cd07373 360910001872 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 360910001873 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 360910001874 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 360910001875 NAD binding site [chemical binding]; other site 360910001876 catalytic residues [active] 360910001879 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 360910001880 homotrimer interaction site [polypeptide binding]; other site 360910001881 putative active site [active] 360910001882 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 360910001884 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 360910001885 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360910001886 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360910001887 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 360910001888 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360910001889 AsmA family; Region: AsmA; pfam05170 360910001890 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 360910001891 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 360910001892 Benzoate membrane transport protein; Region: BenE; pfam03594 360910001893 benzoate transporter; Region: benE; TIGR00843 360910001894 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360910001896 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 360910001897 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 360910001898 active site 360910001899 (T/H)XGH motif; other site 360910001900 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 360910001901 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 360910001902 S-adenosylmethionine binding site [chemical binding]; other site 360910001904 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 360910001905 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 360910001906 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 360910001908 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 360910001909 putative active site [active] 360910001910 putative metal binding residues [ion binding]; other site 360910001911 signature motif; other site 360910001912 putative triphosphate binding site [ion binding]; other site 360910001913 CHAD domain; Region: CHAD; pfam05235 360910001914 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 360910001915 Transcriptional regulator [Transcription]; Region: IclR; COG1414 360910001916 Bacterial transcriptional regulator; Region: IclR; pfam01614 360910001917 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 360910001918 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 360910001919 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 360910001920 dimerization interface [polypeptide binding]; other site 360910001921 active site 360910001922 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 360910001923 homopentamer interface [polypeptide binding]; other site 360910001924 active site 360910001925 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 360910001926 thiamine monophosphate kinase; Provisional; Region: PRK05731 360910001927 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 360910001928 ATP binding site [chemical binding]; other site 360910001929 dimerization interface [polypeptide binding]; other site 360910001930 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 360910001931 tetramer interfaces [polypeptide binding]; other site 360910001932 binuclear metal-binding site [ion binding]; other site 360910001933 Competence-damaged protein; Region: CinA; pfam02464 360910001934 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 360910001935 active site 360910001936 dimer interface [polypeptide binding]; other site 360910001938 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 360910001939 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910001940 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 360910001941 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 360910001942 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 360910001943 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 360910001944 ring oligomerisation interface [polypeptide binding]; other site 360910001945 ATP/Mg binding site [chemical binding]; other site 360910001946 stacking interactions; other site 360910001947 hinge regions; other site 360910001949 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 360910001950 oligomerisation interface [polypeptide binding]; other site 360910001951 mobile loop; other site 360910001952 roof hairpin; other site 360910001954 permease 360910001956 Cupin domain; Region: Cupin_2; pfam07883 360910001957 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 360910001959 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 360910001960 putative DNA binding site [nucleotide binding]; other site 360910001961 putative Zn2+ binding site [ion binding]; other site 360910001962 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 360910001963 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 360910001964 ArsC family; Region: ArsC; pfam03960 360910001965 catalytic residues [active] 360910001966 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 360910001967 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 360910001968 Uncharacterized conserved protein [Function unknown]; Region: COG5476 360910001969 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 360910001970 MlrC C-terminus; Region: MlrC_C; pfam07171 360910001971 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910001972 hypothetical protein; Provisional; Region: PRK07483 360910001973 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 360910001974 inhibitor-cofactor binding pocket; inhibition site 360910001975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910001976 catalytic residue [active] 360910001978 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 360910001979 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 360910001980 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 360910001981 putative active site [active] 360910001983 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 360910001984 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 360910001985 TAP-like protein; Region: Abhydrolase_4; pfam08386 360910001986 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 360910001987 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 360910001988 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 360910001989 active site 360910001990 Fe binding site [ion binding]; other site 360910001992 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360910001993 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 360910001994 active site 360910001995 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 360910001996 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 360910001997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910001998 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 360910001999 putative dimerization interface [polypeptide binding]; other site 360910002002 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 360910002003 acetaldehyde dehydrogenase; Validated; Region: PRK08300 360910002004 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360910002005 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 360910002006 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 360910002007 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 360910002008 active site 360910002009 catalytic residues [active] 360910002010 metal binding site [ion binding]; metal-binding site 360910002011 DmpG-like communication domain; Region: DmpG_comm; pfam07836 360910002012 Hemerythrin; Region: Hemerythrin; cd12107 360910002013 Fe binding site [ion binding]; other site 360910002014 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 360910002015 metabolite-proton symporter; Region: 2A0106; TIGR00883 360910002016 putative substrate translocation pore; other site 360910002017 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 360910002018 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 360910002019 trimer interface [polypeptide binding]; other site 360910002020 eyelet of channel; other site 360910002022 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 360910002023 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360910002024 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360910002025 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 360910002026 classical (c) SDRs; Region: SDR_c; cd05233 360910002027 NAD(P) binding site [chemical binding]; other site 360910002028 active site 360910002030 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 360910002031 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 360910002032 iron-sulfur cluster [ion binding]; other site 360910002033 [2Fe-2S] cluster binding site [ion binding]; other site 360910002034 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 360910002035 hydrophobic ligand binding site; other site 360910002036 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 360910002037 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360910002038 active site 360910002040 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 360910002041 CoA-transferase family III; Region: CoA_transf_3; pfam02515 360910002042 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 360910002043 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 360910002044 Cupin domain; Region: Cupin_2; pfam07883 360910002045 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 360910002046 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360910002047 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 360910002048 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 360910002049 FMN-binding pocket [chemical binding]; other site 360910002050 flavin binding motif; other site 360910002051 phosphate binding motif [ion binding]; other site 360910002052 beta-alpha-beta structure motif; other site 360910002053 NAD binding pocket [chemical binding]; other site 360910002054 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 360910002055 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 360910002056 catalytic loop [active] 360910002057 iron binding site [ion binding]; other site 360910002058 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910002059 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360910002060 classical (c) SDRs; Region: SDR_c; cd05233 360910002061 NAD(P) binding site [chemical binding]; other site 360910002062 active site 360910002064 classical (c) SDRs; Region: SDR_c; cd05233 360910002065 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360910002066 NAD(P) binding site [chemical binding]; other site 360910002067 active site 360910002068 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 360910002069 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 360910002070 tetramer interface [polypeptide binding]; other site 360910002071 active site 360910002072 Mg2+/Mn2+ binding site [ion binding]; other site 360910002074 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360910002075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910002076 DNA-binding site [nucleotide binding]; DNA binding site 360910002077 FCD domain; Region: FCD; pfam07729 360910002079 aconitate hydratase; Validated; Region: PRK09277 360910002080 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 360910002081 substrate binding site [chemical binding]; other site 360910002082 ligand binding site [chemical binding]; other site 360910002083 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 360910002084 substrate binding site [chemical binding]; other site 360910002087 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 360910002088 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 360910002089 Cyclic amidohydrolases, including hydantoinase, dihydropyrimidinase, allantoinase, and dihydroorotase, are involved in the metabolism of pyrimidines and purines, sharing the property of hydrolyzing the cyclic amide bond of each substrate to the...; Region: Cyclic_amidohydrolases; cd01302 360910002090 active site 360910002091 tetramer interface [polypeptide binding]; other site 360910002092 Isochorismatase family; Region: Isochorismatase; pfam00857 360910002093 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 360910002094 catalytic triad [active] 360910002095 conserved cis-peptide bond; other site 360910002096 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 360910002097 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 360910002098 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 360910002100 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 360910002101 metal-binding site [ion binding] 360910002102 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360910002103 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 360910002104 metal-binding site [ion binding] 360910002105 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360910002106 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 360910002107 motif II; other site 360910002111 Domain of unknown function (DUF305); Region: DUF305; pfam03713 360910002112 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 360910002113 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 360910002115 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360910002116 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360910002117 Secretin and TonB N terminus short domain; Region: STN; smart00965 360910002118 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 360910002119 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 360910002120 N-terminal plug; other site 360910002121 ligand-binding site [chemical binding]; other site 360910002123 fec operon regulator FecR; Reviewed; Region: PRK09774 360910002124 FecR protein; Region: FecR; pfam04773 360910002125 RNA polymerase sigma factor; Reviewed; Region: PRK12523 360910002126 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360910002127 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910002128 DNA binding residues [nucleotide binding] 360910002129 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 360910002130 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910002132 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 360910002133 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 360910002134 homodimer interface [polypeptide binding]; other site 360910002135 substrate-cofactor binding pocket; other site 360910002136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910002137 catalytic residue [active] 360910002138 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 360910002139 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 360910002140 putative ion selectivity filter; other site 360910002141 putative pore gating glutamate residue; other site 360910002142 putative H+/Cl- coupling transport residue; other site 360910002145 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 360910002146 putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR; Region: BKR_2_SDR_c; cd05349 360910002147 putative NAD(P) binding site [chemical binding]; other site 360910002148 active site 360910002150 NMT1/THI5 like; Region: NMT1; pfam09084 360910002151 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 360910002152 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360910002153 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 360910002154 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360910002155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910002156 Walker A/P-loop; other site 360910002157 ATP binding site [chemical binding]; other site 360910002158 Q-loop/lid; other site 360910002159 ABC transporter signature motif; other site 360910002160 Walker B; other site 360910002161 D-loop; other site 360910002162 H-loop/switch region; other site 360910002165 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 360910002166 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 360910002167 putative catalytic cysteine [active] 360910002168 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 360910002169 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 360910002170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360910002171 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 360910002172 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 360910002173 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 360910002174 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 360910002175 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 360910002176 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 360910002177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910002178 DNA-binding site [nucleotide binding]; DNA binding site 360910002179 UTRA domain; Region: UTRA; pfam07702 360910002180 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360910002181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910002182 DNA-binding site [nucleotide binding]; DNA binding site 360910002183 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 360910002184 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 360910002185 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360910002186 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 360910002187 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 360910002188 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 360910002189 Cupin domain; Region: Cupin_2; cl17218 360910002190 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 360910002191 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 360910002192 inter-subunit interface; other site 360910002193 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 360910002194 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 360910002195 iron-sulfur cluster [ion binding]; other site 360910002196 [2Fe-2S] cluster binding site [ion binding]; other site 360910002197 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 360910002198 putative alpha subunit interface [polypeptide binding]; other site 360910002199 putative active site [active] 360910002200 putative substrate binding site [chemical binding]; other site 360910002201 Fe binding site [ion binding]; other site 360910002202 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 a...; Region: Rieske_RO_ferredoxin; cd03528 360910002203 [2Fe-2S] cluster binding site [ion binding]; other site 360910002204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 360910002205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360910002206 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910002207 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 360910002208 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 360910002209 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 360910002210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360910002211 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 360910002212 EF-hand domain pair; Region: EF_hand_5; pfam13499 360910002213 pseudo EF-hand loop; other site 360910002214 peptide binding pocket; other site 360910002215 Ca2+ binding site [ion binding]; other site 360910002217 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 360910002219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910002220 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910002221 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 360910002222 putative effector binding pocket; other site 360910002223 putative dimerization interface [polypeptide binding]; other site 360910002225 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 360910002226 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 360910002227 dimer interface [polypeptide binding]; other site 360910002228 active site 360910002229 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360910002230 substrate binding site [chemical binding]; other site 360910002231 catalytic residue [active] 360910002232 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 360910002233 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 360910002234 ATP binding site [chemical binding]; other site 360910002235 Mg++ binding site [ion binding]; other site 360910002236 motif III; other site 360910002237 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 360910002238 nucleotide binding region [chemical binding]; other site 360910002239 ATP-binding site [chemical binding]; other site 360910002240 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 360910002241 putative RNA binding site [nucleotide binding]; other site 360910002244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910002245 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 360910002246 Coenzyme A binding pocket [chemical binding]; other site 360910002247 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 360910002248 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 360910002249 putative ligand binding site [chemical binding]; other site 360910002250 NAD binding site [chemical binding]; other site 360910002251 catalytic site [active] 360910002253 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 360910002254 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910002255 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 360910002256 dimerization interface [polypeptide binding]; other site 360910002257 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 360910002258 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360910002259 tetramer interface [polypeptide binding]; other site 360910002260 active site 360910002261 catalytic triad [active] 360910002262 dimer interface [polypeptide binding]; other site 360910002263 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 360910002264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910002265 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 360910002266 putative dimerization interface [polypeptide binding]; other site 360910002267 dihydropyrimidinase; Provisional; Region: PRK13404 360910002268 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 360910002269 tetramer interface [polypeptide binding]; other site 360910002270 active site 360910002271 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360910002272 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910002273 substrate binding pocket [chemical binding]; other site 360910002274 membrane-bound complex binding site; other site 360910002275 hinge residues; other site 360910002276 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360910002277 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360910002278 Walker A/P-loop; other site 360910002279 ATP binding site [chemical binding]; other site 360910002280 Q-loop/lid; other site 360910002281 ABC transporter signature motif; other site 360910002282 Walker B; other site 360910002283 D-loop; other site 360910002284 H-loop/switch region; other site 360910002287 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910002288 dimer interface [polypeptide binding]; other site 360910002289 conserved gate region; other site 360910002290 putative PBP binding loops; other site 360910002291 ABC-ATPase subunit interface; other site 360910002293 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910002294 dimer interface [polypeptide binding]; other site 360910002295 conserved gate region; other site 360910002296 putative PBP binding loops; other site 360910002297 ABC-ATPase subunit interface; other site 360910002299 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 360910002300 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 360910002301 inhibitor site; inhibition site 360910002302 active site 360910002303 dimer interface [polypeptide binding]; other site 360910002304 catalytic residue [active] 360910002305 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360910002307 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 360910002308 FAD binding domain; Region: FAD_binding_4; pfam01565 360910002309 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 360910002310 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 360910002311 putative NAD(P) binding site [chemical binding]; other site 360910002312 putative active site [active] 360910002313 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360910002314 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910002315 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 360910002316 putative DNA binding site [nucleotide binding]; other site 360910002317 putative Zn2+ binding site [ion binding]; other site 360910002318 AsnC family; Region: AsnC_trans_reg; pfam01037 360910002320 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 360910002321 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 360910002322 S-adenosylmethionine binding site [chemical binding]; other site 360910002323 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 360910002324 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 360910002325 active site 360910002326 catalytic tetrad [active] 360910002329 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 360910002330 aromatic arch; other site 360910002331 DCoH dimer interaction site [polypeptide binding]; other site 360910002332 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 360910002333 DCoH tetramer interaction site [polypeptide binding]; other site 360910002334 substrate binding site [chemical binding]; other site 360910002335 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 360910002336 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 360910002337 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 360910002338 Substrate binding site; other site 360910002339 metal-binding site 360910002341 Phosphotransferase enzyme family; Region: APH; pfam01636 360910002342 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 360910002343 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360910002344 Organic solvent tolerance protein; Region: OstA_C; pfam04453 360910002345 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 360910002346 SurA N-terminal domain; Region: SurA_N; pfam09312 360910002347 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 360910002348 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 360910002349 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 360910002350 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 360910002351 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 360910002353 pyruvate kinase; Provisional; Region: PRK05826 360910002354 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 360910002355 domain interfaces; other site 360910002356 active site 360910002358 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 360910002359 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 360910002360 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 360910002361 active site 360910002362 catalytic residues [active] 360910002363 metal binding site [ion binding]; metal-binding site 360910002364 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 360910002365 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 360910002366 dimer interface [polypeptide binding]; other site 360910002367 active site 360910002368 metal binding site [ion binding]; metal-binding site 360910002369 glutathione binding site [chemical binding]; other site 360910002372 tricarballylate utilization protein B; Provisional; Region: PRK15033 360910002373 tricarballylate dehydrogenase; Validated; Region: PRK08274 360910002374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910002375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910002376 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 360910002377 putative dimerization interface [polypeptide binding]; other site 360910002379 Protein of unknown function DUF45; Region: DUF45; pfam01863 360910002380 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360910002381 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360910002382 putative acyl-acceptor binding pocket; other site 360910002383 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 360910002384 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 360910002385 active site 360910002386 motif I; other site 360910002387 motif II; other site 360910002388 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 360910002389 DALR anticodon binding domain; Region: DALR_1; pfam05746 360910002390 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 360910002391 dimer interface [polypeptide binding]; other site 360910002392 motif 1; other site 360910002393 active site 360910002394 motif 2; other site 360910002395 motif 3; other site 360910002397 enoyl-CoA hydratase; Provisional; Region: PRK08252 360910002398 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 360910002399 substrate binding site [chemical binding]; other site 360910002400 oxyanion hole (OAH) forming residues; other site 360910002401 trimer interface [polypeptide binding]; other site 360910002403 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 360910002404 Fumarase C-terminus; Region: Fumerase_C; pfam05683 360910002405 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360910002406 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360910002407 Peptidase C80 family; Region: Peptidase_C80; pfam11713 360910002408 Uncharacterized conserved protein [Function unknown]; Region: COG3777 360910002409 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 360910002410 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 360910002411 active site 2 [active] 360910002412 active site 1 [active] 360910002413 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 360910002414 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 360910002415 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360910002416 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360910002418 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 360910002419 hypothetical protein; Provisional; Region: PRK11615 360910002420 Isochorismatase family; Region: Isochorismatase; pfam00857 360910002421 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 360910002422 catalytic triad [active] 360910002423 conserved cis-peptide bond; other site 360910002424 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 360910002425 catalytic center binding site [active] 360910002426 ATP binding site [chemical binding]; other site 360910002428 poly(A) polymerase; Region: pcnB; TIGR01942 360910002429 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 360910002430 active site 360910002431 NTP binding site [chemical binding]; other site 360910002432 metal binding triad [ion binding]; metal-binding site 360910002433 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 360910002434 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 360910002436 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 360910002437 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 360910002438 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 360910002439 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 360910002440 Walker A motif; other site 360910002441 ATP binding site [chemical binding]; other site 360910002442 Walker B motif; other site 360910002443 arginine finger; other site 360910002444 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 360910002445 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 360910002446 dimerization interface [polypeptide binding]; other site 360910002447 putative ATP binding site [chemical binding]; other site 360910002448 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 360910002449 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 360910002451 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 360910002452 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 360910002453 ATP binding site [chemical binding]; other site 360910002454 Mg2+ binding site [ion binding]; other site 360910002455 G-X-G motif; other site 360910002456 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 360910002457 ATP binding site [chemical binding]; other site 360910002458 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 360910002460 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 360910002461 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360910002462 Membrane transport protein; Region: Mem_trans; cl09117 360910002463 pyruvate dehydrogenase; Provisional; Region: PRK09124 360910002464 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 360910002465 PYR/PP interface [polypeptide binding]; other site 360910002466 tetramer interface [polypeptide binding]; other site 360910002467 dimer interface [polypeptide binding]; other site 360910002468 TPP binding site [chemical binding]; other site 360910002469 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360910002470 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 360910002471 TPP-binding site [chemical binding]; other site 360910002473 malate:quinone oxidoreductase; Validated; Region: PRK05257 360910002474 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 360910002475 Cupin domain; Region: Cupin_2; cl17218 360910002476 AMIN domain; Region: AMIN; pfam11741 360910002477 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 360910002478 active site 360910002479 metal binding site [ion binding]; metal-binding site 360910002480 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 360910002482 fumarate hydratase; Reviewed; Region: fumC; PRK00485 360910002483 Class II fumarases; Region: Fumarase_classII; cd01362 360910002484 active site 360910002485 tetramer interface [polypeptide binding]; other site 360910002487 Predicted permeases [General function prediction only]; Region: COG0679 360910002488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360910002489 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 360910002490 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360910002491 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 360910002492 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 360910002493 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360910002494 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 360910002495 Walker A/P-loop; other site 360910002496 ATP binding site [chemical binding]; other site 360910002497 Q-loop/lid; other site 360910002498 ABC transporter signature motif; other site 360910002499 Walker B; other site 360910002500 D-loop; other site 360910002501 H-loop/switch region; other site 360910002504 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360910002505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910002506 dimer interface [polypeptide binding]; other site 360910002507 conserved gate region; other site 360910002508 putative PBP binding loops; other site 360910002509 ABC-ATPase subunit interface; other site 360910002510 NMT1-like family; Region: NMT1_2; pfam13379 360910002511 NMT1/THI5 like; Region: NMT1; pfam09084 360910002512 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910002513 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 360910002514 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 360910002515 dimer interface [polypeptide binding]; other site 360910002516 FMN binding site [chemical binding]; other site 360910002517 putative S-transferase; Provisional; Region: PRK11752 360910002518 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 360910002519 C-terminal domain interface [polypeptide binding]; other site 360910002520 GSH binding site (G-site) [chemical binding]; other site 360910002521 dimer interface [polypeptide binding]; other site 360910002522 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 360910002523 dimer interface [polypeptide binding]; other site 360910002524 N-terminal domain interface [polypeptide binding]; other site 360910002525 active site 360910002526 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 360910002527 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 360910002528 homodimer interface [polypeptide binding]; other site 360910002529 substrate-cofactor binding pocket; other site 360910002530 catalytic residue [active] 360910002532 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 360910002533 HPP family; Region: HPP; pfam04982 360910002534 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 360910002535 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 360910002536 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 360910002537 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 360910002538 hypothetical protein; Provisional; Region: PRK09040 360910002539 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360910002540 ligand binding site [chemical binding]; other site 360910002541 Domain of unknown function (DUF802); Region: DUF802; pfam05650 360910002542 Domain of unknown function (DUF802); Region: DUF802; pfam05650 360910002543 Domain of unknown function (DUF802); Region: DUF802; pfam05650 360910002544 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 360910002545 heat shock protein GrpE; Provisional; Region: PRK14140 360910002546 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910002547 dimerization interface [polypeptide binding]; other site 360910002548 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910002549 dimer interface [polypeptide binding]; other site 360910002550 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360910002551 putative CheW interface [polypeptide binding]; other site 360910002552 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 360910002553 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 360910002554 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360910002555 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 360910002556 Walker A/P-loop; other site 360910002557 ATP binding site [chemical binding]; other site 360910002558 Q-loop/lid; other site 360910002559 ABC transporter signature motif; other site 360910002560 Walker B; other site 360910002561 D-loop; other site 360910002562 H-loop/switch region; other site 360910002565 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 360910002566 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 360910002567 lysine transporter; Provisional; Region: PRK10836 360910002570 signaling protein 360910002572 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 360910002573 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910002574 Coenzyme A binding pocket [chemical binding]; other site 360910002575 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360910002576 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910002577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910002578 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 360910002579 dimerization interface [polypeptide binding]; other site 360910002582 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 360910002583 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360910002584 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 360910002585 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 360910002586 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360910002587 putative active site [active] 360910002588 putative metal binding site [ion binding]; other site 360910002590 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 360910002591 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360910002592 enterobactin exporter EntS; Provisional; Region: PRK10489 360910002593 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 360910002594 fructuronate transporter; Provisional; Region: PRK10034; cl15264 360910002595 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 360910002596 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 360910002597 putative C-terminal domain interface [polypeptide binding]; other site 360910002598 putative GSH binding site (G-site) [chemical binding]; other site 360910002599 putative dimer interface [polypeptide binding]; other site 360910002600 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 360910002601 putative N-terminal domain interface [polypeptide binding]; other site 360910002602 putative dimer interface [polypeptide binding]; other site 360910002603 putative substrate binding pocket (H-site) [chemical binding]; other site 360910002604 Nitronate monooxygenase; Region: NMO; pfam03060 360910002605 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 360910002606 FMN binding site [chemical binding]; other site 360910002607 substrate binding site [chemical binding]; other site 360910002608 putative catalytic residue [active] 360910002610 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910002611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910002612 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 360910002613 dimerization interface [polypeptide binding]; other site 360910002615 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 360910002616 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 360910002617 active site 360910002618 purine riboside binding site [chemical binding]; other site 360910002619 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360910002620 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_5; cd08511 360910002621 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 360910002622 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 360910002623 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 360910002624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910002625 Coenzyme A binding pocket [chemical binding]; other site 360910002626 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 360910002627 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 360910002628 dimerization interface [polypeptide binding]; other site 360910002629 DPS ferroxidase diiron center [ion binding]; other site 360910002630 ion pore; other site 360910002631 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360910002632 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 360910002633 ATP binding site [chemical binding]; other site 360910002634 G-X-G motif; other site 360910002636 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 360910002637 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 360910002638 active site 360910002639 phosphorylation site [posttranslational modification] 360910002640 intermolecular recognition site; other site 360910002641 dimerization interface [polypeptide binding]; other site 360910002642 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 360910002643 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 360910002644 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 360910002645 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 360910002647 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 360910002648 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 360910002649 D-pathway; other site 360910002650 Putative ubiquinol binding site [chemical binding]; other site 360910002651 Low-spin heme (heme b) binding site [chemical binding]; other site 360910002652 Putative water exit pathway; other site 360910002653 Binuclear center (heme o3/CuB) [ion binding]; other site 360910002654 K-pathway; other site 360910002655 Putative proton exit pathway; other site 360910002657 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 360910002658 Subunit I/III interface [polypeptide binding]; other site 360910002659 Subunit III/IV interface [polypeptide binding]; other site 360910002660 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 360910002661 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360910002662 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 360910002663 S-adenosylmethionine binding site [chemical binding]; other site 360910002664 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 360910002665 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 360910002666 PAS domain; Region: PAS_9; pfam13426 360910002667 putative active site [active] 360910002668 heme pocket [chemical binding]; other site 360910002669 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 360910002670 PAS domain; Region: PAS_9; pfam13426 360910002671 putative active site [active] 360910002672 heme pocket [chemical binding]; other site 360910002673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910002674 dimer interface [polypeptide binding]; other site 360910002675 putative CheW interface [polypeptide binding]; other site 360910002676 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360910002677 Peptidase family M23; Region: Peptidase_M23; pfam01551 360910002679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 360910002680 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 360910002681 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 360910002682 metal ion-dependent adhesion site (MIDAS); other site 360910002684 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 360910002686 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 360910002688 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 360910002689 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 360910002690 FtsX-like permease family; Region: FtsX; pfam02687 360910002692 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 360910002693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910002694 Walker A/P-loop; other site 360910002695 ATP binding site [chemical binding]; other site 360910002696 Q-loop/lid; other site 360910002697 ABC transporter signature motif; other site 360910002698 Walker B; other site 360910002699 D-loop; other site 360910002700 H-loop/switch region; other site 360910002703 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; cd00198 360910002704 metal ion-dependent adhesion site (MIDAS); other site 360910002706 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 360910002708 Virulence factor SrfB; Region: SrfB; pfam07520 360910002709 virulence factor 360910002710 allophanate hydrolase; Provisional; Region: PRK08186 360910002711 Amidase; Region: Amidase; cl11426 360910002713 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 360910002714 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 360910002715 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360910002716 RNA polymerase sigma factor; Provisional; Region: PRK12547 360910002717 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910002718 DNA binding residues [nucleotide binding] 360910002719 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 360910002720 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 360910002721 putative NAD(P) binding site [chemical binding]; other site 360910002722 putative active site [active] 360910002723 threonine and homoserine efflux system; Provisional; Region: PRK10532 360910002724 EamA-like transporter family; Region: EamA; pfam00892 360910002725 Autotransporter beta-domain; Region: Autotransporter; pfam03797 360910002727 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 360910002728 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 360910002729 S-adenosylmethionine binding site [chemical binding]; other site 360910002731 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 360910002732 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 360910002733 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 360910002734 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 360910002735 catalytic loop [active] 360910002736 iron binding site [ion binding]; other site 360910002737 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 360910002738 4Fe-4S binding domain; Region: Fer4; pfam00037 360910002739 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 360910002740 [4Fe-4S] binding site [ion binding]; other site 360910002741 molybdopterin cofactor binding site; other site 360910002742 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 360910002743 molybdopterin cofactor binding site; other site 360910002747 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 360910002748 putative dimer interface [polypeptide binding]; other site 360910002749 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 360910002750 SLBB domain; Region: SLBB; pfam10531 360910002751 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 360910002754 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 360910002755 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 360910002756 putative dimer interface [polypeptide binding]; other site 360910002757 [2Fe-2S] cluster binding site [ion binding]; other site 360910002758 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 360910002759 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360910002760 PBP superfamily domain; Region: PBP_like; pfam12727 360910002761 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 360910002762 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 360910002763 FeS/SAM binding site; other site 360910002764 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 360910002766 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 360910002767 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 360910002768 GTP binding site; other site 360910002769 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360910002770 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 360910002771 dimer interface [polypeptide binding]; other site 360910002772 putative functional site; other site 360910002773 putative MPT binding site; other site 360910002775 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 360910002776 MPT binding site; other site 360910002777 trimer interface [polypeptide binding]; other site 360910002778 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 360910002779 MoaE homodimer interface [polypeptide binding]; other site 360910002780 MoaD interaction [polypeptide binding]; other site 360910002781 active site residues [active] 360910002782 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 360910002783 MoaE interaction surface [polypeptide binding]; other site 360910002784 MoeB interaction surface [polypeptide binding]; other site 360910002785 thiocarboxylated glycine; other site 360910002786 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 360910002787 trimer interface [polypeptide binding]; other site 360910002788 dimer interface [polypeptide binding]; other site 360910002789 putative active site [active] 360910002791 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360910002792 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360910002793 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360910002794 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 360910002795 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 360910002796 catalytic triad [active] 360910002797 dimer interface [polypeptide binding]; other site 360910002798 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 360910002799 putative MFS family transporter protein; Provisional; Region: PRK03633 360910002800 putative substrate translocation pore; other site 360910002801 biotin synthase; Region: bioB; TIGR00433 360910002802 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 360910002803 FeS/SAM binding site; other site 360910002804 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 360910002805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360910002806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360910002807 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 360910002808 active site 360910002810 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 360910002811 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360910002812 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 360910002813 FeS/SAM binding site; other site 360910002814 TRAM domain; Region: TRAM; pfam01938 360910002816 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 360910002817 PhoH-like protein; Region: PhoH; pfam02562 360910002819 metal-binding heat shock protein; Provisional; Region: PRK00016 360910002820 FOG: CBS domain [General function prediction only]; Region: COG0517 360910002821 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 360910002822 Transporter associated domain; Region: CorC_HlyC; smart01091 360910002823 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 360910002824 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 360910002825 putative active site [active] 360910002826 catalytic triad [active] 360910002827 putative dimer interface [polypeptide binding]; other site 360910002828 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 360910002829 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 360910002830 active site 360910002831 catalytic tetrad [active] 360910002832 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 360910002833 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 360910002834 Protein export membrane protein; Region: SecD_SecF; pfam02355 360910002835 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 360910002836 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 360910002837 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 360910002838 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 360910002839 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 360910002840 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 360910002841 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 360910002842 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 360910002843 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 360910002844 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 360910002845 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 360910002846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360910002847 active site 360910002848 siroheme synthase; Provisional; Region: cysG; PRK10637 360910002849 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 360910002850 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 360910002851 active site 360910002852 SAM binding site [chemical binding]; other site 360910002853 homodimer interface [polypeptide binding]; other site 360910002857 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 360910002859 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 360910002860 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 360910002861 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 360910002862 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360910002863 catalytic residue [active] 360910002864 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 360910002865 aminotransferase; Validated; Region: PRK07337 360910002866 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 360910002867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910002868 homodimer interface [polypeptide binding]; other site 360910002869 catalytic residue [active] 360910002870 malic enzyme; Reviewed; Region: PRK12862 360910002871 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360910002872 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360910002873 putative NAD(P) binding site [chemical binding]; other site 360910002874 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 360910002875 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 360910002876 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 360910002877 active site 360910002878 nucleophile elbow; other site 360910002879 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 360910002880 putative RNAase interaction site [polypeptide binding]; other site 360910002881 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 360910002882 RNA methyltransferase, RsmE family; Region: TIGR00046 360910002883 transketolase; Reviewed; Region: PRK12753 360910002884 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 360910002885 TPP-binding site [chemical binding]; other site 360910002886 dimer interface [polypeptide binding]; other site 360910002887 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 360910002888 PYR/PP interface [polypeptide binding]; other site 360910002889 dimer interface [polypeptide binding]; other site 360910002890 TPP binding site [chemical binding]; other site 360910002891 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360910002893 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 360910002894 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 360910002895 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 360910002897 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 360910002898 Phosphoglycerate kinase; Region: PGK; pfam00162 360910002899 substrate binding site [chemical binding]; other site 360910002900 hinge regions; other site 360910002901 ADP binding site [chemical binding]; other site 360910002902 catalytic site [active] 360910002905 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 360910002906 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 360910002907 Sulfate transporter family; Region: Sulfate_transp; pfam00916 360910002908 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 360910002910 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 360910002911 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360910002912 NAD binding site [chemical binding]; other site 360910002913 homotetramer interface [polypeptide binding]; other site 360910002914 homodimer interface [polypeptide binding]; other site 360910002915 substrate binding site [chemical binding]; other site 360910002916 active site 360910002918 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 360910002919 propionate/acetate kinase; Provisional; Region: PRK12379 360910002921 phosphate acetyltransferase; Provisional; Region: PRK11890 360910002922 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 360910002923 hypothetical protein 360910002924 glutathione S-transferase; Provisional; Region: PRK15113 360910002925 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 360910002926 C-terminal domain interface [polypeptide binding]; other site 360910002927 GSH binding site (G-site) [chemical binding]; other site 360910002928 dimer interface [polypeptide binding]; other site 360910002929 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 360910002930 putative substrate binding pocket (H-site) [chemical binding]; other site 360910002931 N-terminal domain interface [polypeptide binding]; other site 360910002932 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360910002933 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 360910002934 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 360910002935 HSP70 interaction site [polypeptide binding]; other site 360910002936 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360910002937 substrate binding site [polypeptide binding]; other site 360910002938 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 360910002939 AzlC protein; Region: AzlC; pfam03591 360910002940 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 360910002941 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360910002942 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360910002943 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 360910002944 MPT binding site; other site 360910002945 trimer interface [polypeptide binding]; other site 360910002948 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360910002949 Peptidase family M23; Region: Peptidase_M23; pfam01551 360910002950 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 360910002951 rRNA binding site [nucleotide binding]; other site 360910002952 predicted 30S ribosome binding site; other site 360910002953 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 360910002954 non-specific DNA binding site [nucleotide binding]; other site 360910002955 salt bridge; other site 360910002956 sequence-specific DNA binding site [nucleotide binding]; other site 360910002957 Cupin domain; Region: Cupin_2; pfam07883 360910002958 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360910002960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 360910002962 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 360910002963 putative acetyltransferase; Provisional; Region: PRK03624 360910002964 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910002965 Coenzyme A binding pocket [chemical binding]; other site 360910002966 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360910002967 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 360910002968 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 360910002969 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 360910002970 intersubunit interface [polypeptide binding]; other site 360910002971 active site 360910002972 zinc binding site [ion binding]; other site 360910002973 Na+ binding site [ion binding]; other site 360910002976 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 360910002977 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 360910002978 ATP binding site [chemical binding]; other site 360910002979 active site 360910002980 substrate binding site [chemical binding]; other site 360910002982 AIR carboxylase; Region: AIRC; pfam00731 360910002983 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 360910002984 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360910002985 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 360910002986 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 360910002988 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 360910002989 Transcriptional regulator [Transcription]; Region: IclR; COG1414 360910002990 Bacterial transcriptional regulator; Region: IclR; pfam01614 360910002991 agmatinase; Region: agmatinase; TIGR01230 360910002992 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 360910002993 oligomer interface [polypeptide binding]; other site 360910002994 putative active site [active] 360910002995 Mn binding site [ion binding]; other site 360910002997 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910002998 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360910002999 substrate binding pocket [chemical binding]; other site 360910003000 membrane-bound complex binding site; other site 360910003001 hinge residues; other site 360910003002 amino acid ABC transporter, permease component 360910003004 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360910003005 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360910003006 Walker A/P-loop; other site 360910003007 ATP binding site [chemical binding]; other site 360910003008 Q-loop/lid; other site 360910003009 ABC transporter signature motif; other site 360910003010 Walker B; other site 360910003011 D-loop; other site 360910003012 H-loop/switch region; other site 360910003015 hypothetical protein; Validated; Region: PRK07586 360910003016 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360910003017 PYR/PP interface [polypeptide binding]; other site 360910003018 dimer interface [polypeptide binding]; other site 360910003019 TPP binding site [chemical binding]; other site 360910003020 Thiamine pyrophosphate (TPP) family, BFDC subfamily, 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...; Region: TPP_BFDC; cd02002 360910003021 TPP-binding site [chemical binding]; other site 360910003022 dimer interface [polypeptide binding]; other site 360910003023 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 360910003024 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360910003025 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 360910003026 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 360910003027 FAD binding site [chemical binding]; other site 360910003028 substrate binding pocket [chemical binding]; other site 360910003029 catalytic base [active] 360910003031 thiamine pyrophosphate protein; Validated; Region: PRK08199 360910003032 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360910003033 PYR/PP interface [polypeptide binding]; other site 360910003034 dimer interface [polypeptide binding]; other site 360910003035 TPP binding site [chemical binding]; other site 360910003036 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360910003037 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 360910003038 TPP-binding site [chemical binding]; other site 360910003040 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 360910003041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910003042 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 360910003043 dimerization interface [polypeptide binding]; other site 360910003044 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 360910003045 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 360910003046 active site 360910003047 DNA binding site [nucleotide binding] 360910003048 Int/Topo IB signature motif; other site 360910003049 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 360910003050 putative deacylase active site [active] 360910003051 intracellular protease, PfpI family; Region: PfpI; TIGR01382 360910003052 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 360910003053 conserved cys residue [active] 360910003054 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 360910003055 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 360910003056 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 360910003057 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 360910003058 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360910003059 putative substrate translocation pore; other site 360910003060 probable DNA repair protein; Region: TIGR03623 360910003061 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360910003062 Part of AAA domain; Region: AAA_19; pfam13245 360910003063 Family description; Region: UvrD_C_2; pfam13538 360910003064 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360910003067 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 360910003068 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910003069 Walker A motif; other site 360910003070 ATP binding site [chemical binding]; other site 360910003071 Walker B motif; other site 360910003072 arginine finger; other site 360910003073 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 360910003075 hypothetical protein; Validated; Region: PRK00153 360910003076 recombination protein RecR; Reviewed; Region: recR; PRK00076 360910003077 RecR protein; Region: RecR; pfam02132 360910003078 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 360910003079 putative active site [active] 360910003080 putative metal-binding site [ion binding]; other site 360910003081 tetramer interface [polypeptide binding]; other site 360910003083 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 360910003085 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 360910003086 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360910003087 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360910003088 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 360910003089 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360910003090 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360910003091 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 360910003092 IMP binding site; other site 360910003093 dimer interface [polypeptide binding]; other site 360910003094 interdomain contacts; other site 360910003095 partial ornithine binding site; other site 360910003100 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 360910003101 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 360910003102 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 360910003103 catalytic site [active] 360910003104 subunit interface [polypeptide binding]; other site 360910003107 transaldolase-like protein; Provisional; Region: PTZ00411 360910003108 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 360910003109 active site 360910003110 dimer interface [polypeptide binding]; other site 360910003111 catalytic residue [active] 360910003114 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 360910003115 catalytic core [active] 360910003116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910003117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910003118 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 360910003119 dimerization interface [polypeptide binding]; other site 360910003121 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 360910003122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910003123 Walker A/P-loop; other site 360910003124 ATP binding site [chemical binding]; other site 360910003125 Q-loop/lid; other site 360910003126 ABC transporter signature motif; other site 360910003127 Walker B; other site 360910003128 D-loop; other site 360910003129 H-loop/switch region; other site 360910003130 TOBE domain; Region: TOBE_2; pfam08402 360910003133 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 360910003134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910003135 dimer interface [polypeptide binding]; other site 360910003136 conserved gate region; other site 360910003137 putative PBP binding loops; other site 360910003138 ABC-ATPase subunit interface; other site 360910003139 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910003140 dimer interface [polypeptide binding]; other site 360910003141 conserved gate region; other site 360910003142 putative PBP binding loops; other site 360910003143 ABC-ATPase subunit interface; other site 360910003146 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 360910003147 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 360910003149 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 360910003150 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 360910003151 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 360910003155 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 360910003156 FtsJ-like methyltransferase; Region: FtsJ; cl17430 360910003157 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 360910003158 FtsH Extracellular; Region: FtsH_ext; pfam06480 360910003159 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 360910003160 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910003161 Walker A motif; other site 360910003162 ATP binding site [chemical binding]; other site 360910003163 Walker B motif; other site 360910003164 arginine finger; other site 360910003165 Peptidase family M41; Region: Peptidase_M41; pfam01434 360910003169 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 360910003170 dihydropteroate synthase; Region: DHPS; TIGR01496 360910003171 substrate binding pocket [chemical binding]; other site 360910003172 dimer interface [polypeptide binding]; other site 360910003173 inhibitor binding site; inhibition site 360910003176 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 360910003177 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 360910003178 active site 360910003179 substrate binding site [chemical binding]; other site 360910003180 metal binding site [ion binding]; metal-binding site 360910003183 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 360910003184 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 360910003185 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 360910003186 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 360910003187 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 360910003188 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 360910003189 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 360910003190 putative active site [active] 360910003191 catalytic site [active] 360910003192 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 360910003193 putative domain interface [polypeptide binding]; other site 360910003194 putative active site [active] 360910003195 catalytic site [active] 360910003196 filamentous hemagglutinin/adhesin 360910003200 PBP superfamily domain; Region: PBP_like_2; cl17296 360910003201 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 360910003202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910003203 dimer interface [polypeptide binding]; other site 360910003204 conserved gate region; other site 360910003205 putative PBP binding loops; other site 360910003206 ABC-ATPase subunit interface; other site 360910003208 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 360910003209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910003210 dimer interface [polypeptide binding]; other site 360910003211 conserved gate region; other site 360910003212 putative PBP binding loops; other site 360910003213 ABC-ATPase subunit interface; other site 360910003215 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 360910003216 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 360910003217 Walker A/P-loop; other site 360910003218 ATP binding site [chemical binding]; other site 360910003219 Q-loop/lid; other site 360910003220 ABC transporter signature motif; other site 360910003221 Walker B; other site 360910003222 D-loop; other site 360910003223 H-loop/switch region; other site 360910003226 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 360910003227 Protein of unknown function (DUF497); Region: DUF497; pfam04365 360910003228 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 360910003229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910003230 DNA-binding site [nucleotide binding]; DNA binding site 360910003231 UTRA domain; Region: UTRA; pfam07702 360910003232 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 360910003233 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_6; cd06340 360910003234 putative ligand binding site [chemical binding]; other site 360910003235 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910003236 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 360910003237 TM-ABC transporter signature motif; other site 360910003238 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 360910003239 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910003240 TM-ABC transporter signature motif; other site 360910003241 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910003242 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910003243 Walker A/P-loop; other site 360910003244 ATP binding site [chemical binding]; other site 360910003245 Q-loop/lid; other site 360910003246 ABC transporter signature motif; other site 360910003247 Walker B; other site 360910003248 D-loop; other site 360910003249 H-loop/switch region; other site 360910003251 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910003252 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910003253 Walker A/P-loop; other site 360910003254 ATP binding site [chemical binding]; other site 360910003255 Q-loop/lid; other site 360910003256 ABC transporter signature motif; other site 360910003257 Walker B; other site 360910003258 D-loop; other site 360910003259 H-loop/switch region; other site 360910003262 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 360910003263 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 360910003264 substrate binding site [chemical binding]; other site 360910003265 ligand binding site [chemical binding]; other site 360910003266 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 360910003267 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 360910003268 substrate binding site [chemical binding]; other site 360910003269 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 360910003270 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 360910003272 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 360910003273 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 360910003274 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 360910003275 Isochorismatase family; Region: Isochorismatase; pfam00857 360910003276 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 360910003277 catalytic triad [active] 360910003278 conserved cis-peptide bond; other site 360910003279 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360910003280 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 360910003282 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 360910003283 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 360910003284 tetramer interface [polypeptide binding]; other site 360910003285 active site 360910003286 Mg2+/Mn2+ binding site [ion binding]; other site 360910003288 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910003289 D-glutamate deacylase; Validated; Region: PRK09061 360910003290 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 360910003291 active site 360910003292 putative substrate binding pocket [chemical binding]; other site 360910003293 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 360910003294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360910003295 thiamine pyrophosphate protein; Validated; Region: PRK08199 360910003296 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360910003297 PYR/PP interface [polypeptide binding]; other site 360910003298 dimer interface [polypeptide binding]; other site 360910003299 TPP binding site [chemical binding]; other site 360910003300 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360910003301 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 360910003302 TPP-binding site [chemical binding]; other site 360910003304 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360910003305 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360910003306 benzoate transport; Region: 2A0115; TIGR00895 360910003307 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 360910003308 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360910003309 metal binding site [ion binding]; metal-binding site 360910003310 putative dimer interface [polypeptide binding]; other site 360910003311 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 360910003312 active site 360910003313 homopentamer interface [polypeptide binding]; other site 360910003314 dimer interface [polypeptide binding]; other site 360910003315 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 360910003316 Na binding site [ion binding]; other site 360910003317 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 360910003318 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360910003319 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 360910003320 tetramerization interface [polypeptide binding]; other site 360910003321 NAD(P) binding site [chemical binding]; other site 360910003322 catalytic residues [active] 360910003323 Flavin Reductases; Region: FlaRed; cl00801 360910003324 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 360910003325 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 360910003326 active site 360910003327 non-prolyl cis peptide bond; other site 360910003328 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 360910003329 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 360910003330 non-specific DNA binding site [nucleotide binding]; other site 360910003331 salt bridge; other site 360910003332 sequence-specific DNA binding site [nucleotide binding]; other site 360910003333 Cupin domain; Region: Cupin_2; cl17218 360910003334 Protein of unknown function, DUF393; Region: DUF393; pfam04134 360910003335 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 360910003336 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 360910003337 substrate binding site [chemical binding]; other site 360910003338 oxyanion hole (OAH) forming residues; other site 360910003339 trimer interface [polypeptide binding]; other site 360910003340 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 360910003341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910003342 DNA-binding site [nucleotide binding]; DNA binding site 360910003343 UTRA domain; Region: UTRA; cl17743 360910003345 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910003346 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 360910003347 catalytic site [active] 360910003348 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 360910003349 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360910003350 acyl-activating enzyme (AAE) consensus motif; other site 360910003351 AMP binding site [chemical binding]; other site 360910003352 active site 360910003353 CoA binding site [chemical binding]; other site 360910003356 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910003357 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910003358 Walker A/P-loop; other site 360910003359 ATP binding site [chemical binding]; other site 360910003360 Q-loop/lid; other site 360910003361 ABC transporter signature motif; other site 360910003362 Walker B; other site 360910003363 D-loop; other site 360910003364 H-loop/switch region; other site 360910003366 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910003367 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910003368 Walker A/P-loop; other site 360910003369 ATP binding site [chemical binding]; other site 360910003370 Q-loop/lid; other site 360910003371 ABC transporter signature motif; other site 360910003372 Walker B; other site 360910003373 D-loop; other site 360910003374 H-loop/switch region; other site 360910003376 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910003377 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 360910003378 TM-ABC transporter signature motif; other site 360910003379 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 360910003380 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910003381 TM-ABC transporter signature motif; other site 360910003382 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 360910003383 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_3; cd06336 360910003384 putative ligand binding site [chemical binding]; other site 360910003386 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 360910003387 putative active site [active] 360910003388 Zn binding site [ion binding]; other site 360910003389 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910003390 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 360910003391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910003392 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 360910003393 dimerization interface [polypeptide binding]; other site 360910003395 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 360910003396 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 360910003397 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 360910003398 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 360910003399 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 360910003400 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 360910003401 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 360910003402 Amidase; Region: Amidase; cl11426 360910003404 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 360910003405 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910003406 Walker A/P-loop; other site 360910003407 ATP binding site [chemical binding]; other site 360910003408 Q-loop/lid; other site 360910003409 ABC transporter signature motif; other site 360910003410 Walker B; other site 360910003411 D-loop; other site 360910003412 H-loop/switch region; other site 360910003413 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910003416 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 360910003417 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910003418 Walker A/P-loop; other site 360910003419 ATP binding site [chemical binding]; other site 360910003420 Q-loop/lid; other site 360910003421 ABC transporter signature motif; other site 360910003422 Walker B; other site 360910003423 D-loop; other site 360910003424 H-loop/switch region; other site 360910003425 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910003428 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 360910003429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910003430 dimer interface [polypeptide binding]; other site 360910003431 conserved gate region; other site 360910003432 putative PBP binding loops; other site 360910003433 ABC-ATPase subunit interface; other site 360910003436 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910003437 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910003438 dimer interface [polypeptide binding]; other site 360910003439 conserved gate region; other site 360910003440 putative PBP binding loops; other site 360910003441 ABC-ATPase subunit interface; other site 360910003442 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360910003443 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 360910003444 Uncharacterized conserved protein [Function unknown]; Region: COG5476 360910003445 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 360910003446 MlrC C-terminus; Region: MlrC_C; pfam07171 360910003447 PAS domain; Region: PAS; smart00091 360910003448 PAS domain; Region: PAS_9; pfam13426 360910003449 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 360910003450 putative active site [active] 360910003451 heme pocket [chemical binding]; other site 360910003452 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 360910003453 PAS domain; Region: PAS_9; pfam13426 360910003454 putative active site [active] 360910003455 heme pocket [chemical binding]; other site 360910003456 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910003457 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910003458 metal binding site [ion binding]; metal-binding site 360910003459 active site 360910003460 I-site; other site 360910003461 Protein of unknown function (DUF461); Region: DUF461; pfam04314 360910003462 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 360910003463 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 360910003465 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 360910003466 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 360910003467 multidrug resistance protein MdtN; Provisional; Region: PRK10476 360910003468 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360910003469 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910003471 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 360910003472 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 360910003473 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 360910003474 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 360910003475 active site 360910003476 inner membrane protein; Provisional; Region: PRK10995 360910003477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910003478 DNA-binding site [nucleotide binding]; DNA binding site 360910003479 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360910003480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 360910003481 DNA-binding site [nucleotide binding]; DNA binding site 360910003482 FCD domain; Region: FCD; pfam07729 360910003483 aconitate hydratase; Provisional; Region: acnA; PRK12881 360910003484 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 360910003485 substrate binding site [chemical binding]; other site 360910003486 ligand binding site [chemical binding]; other site 360910003487 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 360910003488 substrate binding site [chemical binding]; other site 360910003492 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 360910003493 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 360910003495 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 360910003496 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360910003497 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910003498 dimerization interface [polypeptide binding]; other site 360910003499 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910003500 dimer interface [polypeptide binding]; other site 360910003501 putative CheW interface [polypeptide binding]; other site 360910003502 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 360910003503 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 360910003504 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 360910003505 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 360910003506 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 360910003507 putative binding surface; other site 360910003508 active site 360910003509 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 360910003510 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 360910003511 ATP binding site [chemical binding]; other site 360910003512 Mg2+ binding site [ion binding]; other site 360910003513 G-X-G motif; other site 360910003514 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 360910003515 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 360910003516 Response regulator receiver domain; Region: Response_reg; pfam00072 360910003517 active site 360910003518 phosphorylation site [posttranslational modification] 360910003519 intermolecular recognition site; other site 360910003520 dimerization interface [polypeptide binding]; other site 360910003522 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 360910003523 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 360910003524 active site 360910003525 phosphorylation site [posttranslational modification] 360910003526 intermolecular recognition site; other site 360910003527 dimerization interface [polypeptide binding]; other site 360910003528 CheB methylesterase; Region: CheB_methylest; pfam01339 360910003529 Response regulator receiver domain; Region: Response_reg; pfam00072 360910003530 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 360910003531 active site 360910003532 phosphorylation site [posttranslational modification] 360910003533 intermolecular recognition site; other site 360910003534 dimerization interface [polypeptide binding]; other site 360910003535 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910003536 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910003537 metal binding site [ion binding]; metal-binding site 360910003538 active site 360910003539 I-site; other site 360910003540 Flagellar regulator YcgR; Region: YcgR; pfam07317 360910003541 PilZ domain; Region: PilZ; pfam07238 360910003542 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360910003543 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 360910003544 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 360910003545 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910003546 substrate binding pocket [chemical binding]; other site 360910003547 membrane-bound complex binding site; other site 360910003548 hinge residues; other site 360910003549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910003550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910003551 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 360910003552 dimerization interface [polypeptide binding]; other site 360910003555 Amino acid synthesis; Region: AA_synth; pfam06684 360910003556 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910003557 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 360910003558 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 360910003559 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 360910003560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910003561 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 360910003562 putative dimerization interface [polypeptide binding]; other site 360910003563 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 360910003564 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360910003565 active site 360910003566 metal binding site [ion binding]; metal-binding site 360910003567 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 360910003568 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 360910003569 active site 360910003570 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 360910003571 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 360910003572 CoenzymeA binding site [chemical binding]; other site 360910003573 subunit interaction site [polypeptide binding]; other site 360910003574 PHB binding site; other site 360910003575 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360910003576 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360910003577 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 360910003578 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 360910003579 trimer interface [polypeptide binding]; other site 360910003580 eyelet of channel; other site 360910003582 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 360910003583 NADH dehydrogenase subunit B; Validated; Region: PRK06411 360910003586 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 360910003587 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 360910003588 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 360910003589 NADH dehydrogenase subunit D; Validated; Region: PRK06075 360910003591 NADH dehydrogenase subunit E; Validated; Region: PRK07539 360910003592 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 360910003593 putative dimer interface [polypeptide binding]; other site 360910003594 [2Fe-2S] cluster binding site [ion binding]; other site 360910003595 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 360910003596 SLBB domain; Region: SLBB; pfam10531 360910003597 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 360910003599 NADH dehydrogenase subunit G; Validated; Region: PRK09129 360910003600 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 360910003601 catalytic loop [active] 360910003602 iron binding site [ion binding]; other site 360910003603 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 360910003604 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 360910003605 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 360910003608 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 360910003610 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 360910003611 4Fe-4S binding domain; Region: Fer4; pfam00037 360910003612 4Fe-4S binding domain; Region: Fer4; pfam00037 360910003616 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 360910003617 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 360910003618 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 360910003619 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 360910003620 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360910003621 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 360910003622 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360910003623 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 360910003624 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360910003625 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 360910003626 Protein of unknown function (DUF1399); Region: DUF1399; pfam07173 360910003627 Uncharacterized conserved protein [Function unknown]; Region: COG4278 360910003628 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 360910003629 homotrimer interaction site [polypeptide binding]; other site 360910003630 zinc binding site [ion binding]; other site 360910003631 CDP-binding sites; other site 360910003632 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 360910003633 substrate binding site; other site 360910003634 dimer interface; other site 360910003636 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 360910003637 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 360910003638 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 360910003639 ATP binding site [chemical binding]; other site 360910003640 putative Mg++ binding site [ion binding]; other site 360910003641 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 360910003642 nucleotide binding region [chemical binding]; other site 360910003643 ATP-binding site [chemical binding]; other site 360910003644 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 360910003646 phosphoserine phosphatase SerB; Region: serB; TIGR00338 360910003647 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 360910003648 motif II; other site 360910003649 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 360910003650 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 360910003651 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360910003652 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 360910003653 dimer interface [polypeptide binding]; other site 360910003654 decamer (pentamer of dimers) interface [polypeptide binding]; other site 360910003655 catalytic triad [active] 360910003656 peroxidatic and resolving cysteines [active] 360910003657 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910003658 dimerization interface [polypeptide binding]; other site 360910003659 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910003660 dimer interface [polypeptide binding]; other site 360910003661 phosphorylation site [posttranslational modification] 360910003662 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 360910003663 ATP binding site [chemical binding]; other site 360910003664 Mg2+ binding site [ion binding]; other site 360910003665 G-X-G motif; other site 360910003666 osmolarity response regulator; Provisional; Region: ompR; PRK09468 360910003667 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 360910003668 active site 360910003669 phosphorylation site [posttranslational modification] 360910003670 intermolecular recognition site; other site 360910003671 dimerization interface [polypeptide binding]; other site 360910003672 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910003673 DNA binding site [nucleotide binding] 360910003674 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 360910003675 Glycoprotease family; Region: Peptidase_M22; pfam00814 360910003676 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 360910003677 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360910003678 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 360910003679 Fe-S cluster binding site [ion binding]; other site 360910003680 active site 360910003681 lysophospholipid transporter LplT; Provisional; Region: PRK11195 360910003682 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 360910003683 putative substrate translocation pore; other site 360910003684 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 360910003685 AAA domain; Region: AAA_23; pfam13476 360910003686 Walker A/P-loop; other site 360910003687 ATP binding site [chemical binding]; other site 360910003688 Q-loop/lid; other site 360910003689 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 360910003690 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 360910003691 ABC transporter signature motif; other site 360910003692 Walker B; other site 360910003693 D-loop; other site 360910003694 H-loop/switch region; other site 360910003697 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 360910003699 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 360910003700 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 360910003701 nucleotide binding pocket [chemical binding]; other site 360910003702 K-X-D-G motif; other site 360910003703 catalytic site [active] 360910003704 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 360910003705 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 360910003706 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 360910003707 Dimer interface [polypeptide binding]; other site 360910003708 BRCT sequence motif; other site 360910003711 SurA N-terminal domain; Region: SurA_N_3; cl07813 360910003712 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 360910003714 BolA-like protein; Region: BolA; pfam01722 360910003715 intracellular septation protein A; Reviewed; Region: PRK00259 360910003716 methionine sulfoxide reductase B; Provisional; Region: PRK00222 360910003717 SelR domain; Region: SelR; pfam01641 360910003718 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360910003719 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910003720 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 360910003721 Walker A/P-loop; other site 360910003722 Walker A/P-loop; other site 360910003723 ATP binding site [chemical binding]; other site 360910003724 ATP binding site [chemical binding]; other site 360910003725 Q-loop/lid; other site 360910003726 ABC transporter signature motif; other site 360910003727 Walker B; other site 360910003728 D-loop; other site 360910003729 H-loop/switch region; other site 360910003732 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 360910003733 BioY family; Region: BioY; pfam02632 360910003735 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360910003736 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 360910003737 putative ligand binding site [chemical binding]; other site 360910003738 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 360910003739 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910003740 TM-ABC transporter signature motif; other site 360910003741 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910003742 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 360910003743 TM-ABC transporter signature motif; other site 360910003744 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910003745 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910003746 Walker A/P-loop; other site 360910003747 ATP binding site [chemical binding]; other site 360910003748 Q-loop/lid; other site 360910003749 ABC transporter signature motif; other site 360910003750 Walker B; other site 360910003751 D-loop; other site 360910003752 H-loop/switch region; other site 360910003754 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910003755 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910003756 Walker A/P-loop; other site 360910003757 ATP binding site [chemical binding]; other site 360910003758 Q-loop/lid; other site 360910003759 ABC transporter signature motif; other site 360910003760 Walker B; other site 360910003761 D-loop; other site 360910003762 H-loop/switch region; other site 360910003765 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 360910003766 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 360910003767 Phosphoesterase family; Region: Phosphoesterase; pfam04185 360910003768 Domain of unknown function (DUF756); Region: DUF756; pfam05506 360910003769 Domain of unknown function (DUF756); Region: DUF756; pfam05506 360910003770 aminotransferase; Provisional; Region: PRK13356 360910003771 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360910003772 homodimer interface [polypeptide binding]; other site 360910003773 substrate-cofactor binding pocket; other site 360910003774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910003775 catalytic residue [active] 360910003776 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910003777 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 360910003778 TM-ABC transporter signature motif; other site 360910003779 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 360910003780 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910003781 TM-ABC transporter signature motif; other site 360910003782 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 360910003783 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 360910003784 putative ligand binding site [chemical binding]; other site 360910003785 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910003786 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910003787 Walker A/P-loop; other site 360910003788 ATP binding site [chemical binding]; other site 360910003789 Q-loop/lid; other site 360910003790 ABC transporter signature motif; other site 360910003791 Walker B; other site 360910003792 D-loop; other site 360910003793 H-loop/switch region; other site 360910003795 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910003796 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910003797 Walker A/P-loop; other site 360910003798 ATP binding site [chemical binding]; other site 360910003799 Q-loop/lid; other site 360910003800 ABC transporter signature motif; other site 360910003801 Walker B; other site 360910003802 D-loop; other site 360910003803 H-loop/switch region; other site 360910003805 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 360910003806 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360910003807 minor groove reading motif; other site 360910003808 helix-hairpin-helix signature motif; other site 360910003809 substrate binding pocket [chemical binding]; other site 360910003810 active site 360910003811 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 360910003812 ferredoxin; Provisional; Region: PRK08764 360910003813 Putative Fe-S cluster; Region: FeS; pfam04060 360910003814 4Fe-4S binding domain; Region: Fer4; pfam00037 360910003817 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 360910003818 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 360910003820 ferredoxin-NADP reductase; Provisional; Region: PRK10926 360910003821 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 360910003822 FAD binding pocket [chemical binding]; other site 360910003823 FAD binding motif [chemical binding]; other site 360910003824 phosphate binding motif [ion binding]; other site 360910003825 beta-alpha-beta structure motif; other site 360910003826 NAD binding pocket [chemical binding]; other site 360910003827 Ferredoxin [Energy production and conversion]; Region: COG1146 360910003828 4Fe-4S binding domain; Region: Fer4; cl02805 360910003829 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 360910003831 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 360910003832 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 360910003833 active site 360910003834 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 360910003835 homotrimer interaction site [polypeptide binding]; other site 360910003836 putative active site [active] 360910003838 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 360910003839 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 360910003840 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 360910003842 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 360910003843 HD domain; Region: HD_4; pfam13328 360910003844 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 360910003845 synthetase active site [active] 360910003846 NTP binding site [chemical binding]; other site 360910003847 metal binding site [ion binding]; metal-binding site 360910003848 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 360910003849 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 360910003850 acetylornithine deacetylase; Provisional; Region: PRK07522 360910003851 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 360910003852 metal binding site [ion binding]; metal-binding site 360910003853 putative dimer interface [polypeptide binding]; other site 360910003854 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 360910003855 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 360910003856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910003857 catalytic residue [active] 360910003859 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 360910003860 substrate binding site [chemical binding]; other site 360910003861 active site 360910003862 catalytic residues [active] 360910003863 heterodimer interface [polypeptide binding]; other site 360910003865 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 360910003866 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 360910003867 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 360910003868 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360910003869 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 360910003870 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360910003871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910003873 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 360910003874 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 360910003875 homodimer interface [polypeptide binding]; other site 360910003876 oligonucleotide binding site [chemical binding]; other site 360910003877 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 360910003878 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 360910003879 RNA binding surface [nucleotide binding]; other site 360910003880 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360910003881 active site 360910003883 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 360910003884 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 360910003885 motif II; other site 360910003886 TMAO/DMSO reductase; Reviewed; Region: PRK05363 360910003887 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 360910003888 Moco binding site; other site 360910003889 metal coordination site [ion binding]; other site 360910003890 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 360910003891 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 360910003892 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 360910003893 amidase catalytic site [active] 360910003894 Zn binding residues [ion binding]; other site 360910003895 substrate binding site [chemical binding]; other site 360910003896 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 360910003898 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 360910003899 putative SAM binding site [chemical binding]; other site 360910003900 homodimer interface [polypeptide binding]; other site 360910003901 Maf-like protein; Region: Maf; pfam02545 360910003902 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 360910003903 active site 360910003904 dimer interface [polypeptide binding]; other site 360910003905 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 360910003906 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 360910003907 putative phosphate acyltransferase; Provisional; Region: PRK05331 360910003908 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 360910003909 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 360910003910 dimer interface [polypeptide binding]; other site 360910003911 active site 360910003912 CoA binding pocket [chemical binding]; other site 360910003913 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 360910003914 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 360910003916 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 360910003917 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 360910003918 NAD(P) binding site [chemical binding]; other site 360910003919 homotetramer interface [polypeptide binding]; other site 360910003920 homodimer interface [polypeptide binding]; other site 360910003921 active site 360910003923 acyl carrier protein; Provisional; Region: acpP; PRK00982 360910003926 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 360910003927 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 360910003928 dimer interface [polypeptide binding]; other site 360910003929 active site 360910003931 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 360910003932 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360910003933 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910003934 DNA binding residues [nucleotide binding] 360910003936 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 360910003938 anti-sigma E factor; Provisional; Region: rseB; PRK09455 360910003939 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 360910003940 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360910003941 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360910003942 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 360910003943 protein binding site [polypeptide binding]; other site 360910003944 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 360910003945 protein binding site [polypeptide binding]; other site 360910003946 GTP-binding protein LepA; Provisional; Region: PRK05433 360910003947 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 360910003948 G1 box; other site 360910003949 putative GEF interaction site [polypeptide binding]; other site 360910003950 GTP/Mg2+ binding site [chemical binding]; other site 360910003951 Switch I region; other site 360910003952 G2 box; other site 360910003953 G3 box; other site 360910003954 Switch II region; other site 360910003955 G4 box; other site 360910003956 G5 box; other site 360910003957 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 360910003958 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 360910003959 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 360910003962 signal peptidase I; Provisional; Region: PRK10861 360910003963 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 360910003964 Catalytic site [active] 360910003965 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 360910003969 ribonuclease III; Reviewed; Region: rnc; PRK00102 360910003970 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 360910003971 dimerization interface [polypeptide binding]; other site 360910003972 active site 360910003973 metal binding site [ion binding]; metal-binding site 360910003974 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 360910003975 dsRNA binding site [nucleotide binding]; other site 360910003977 GTPase Era; Reviewed; Region: era; PRK00089 360910003978 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 360910003979 G1 box; other site 360910003980 GTP/Mg2+ binding site [chemical binding]; other site 360910003981 Switch I region; other site 360910003982 G2 box; other site 360910003983 Switch II region; other site 360910003984 G3 box; other site 360910003985 G4 box; other site 360910003986 G5 box; other site 360910003987 KH domain; Region: KH_2; pfam07650 360910003989 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 360910003990 Recombination protein O N terminal; Region: RecO_N; pfam11967 360910003991 Recombination protein O C terminal; Region: RecO_C; pfam02565 360910003992 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 360910003993 YccA-like proteins; Region: YccA_like; cd10433 360910003994 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 360910003995 multifunctional aminopeptidase A; Provisional; Region: PRK00913 360910003996 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 360910003997 interface (dimer of trimers) [polypeptide binding]; other site 360910003998 Substrate-binding/catalytic site; other site 360910003999 Zn-binding sites [ion binding]; other site 360910004001 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360910004002 Predicted permeases [General function prediction only]; Region: COG0795 360910004003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910004004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910004005 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 360910004006 dimerization interface [polypeptide binding]; other site 360910004008 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 360910004009 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 360910004010 putative ligand binding site [chemical binding]; other site 360910004011 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 360910004012 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 360910004013 tetrameric interface [polypeptide binding]; other site 360910004014 NAD binding site [chemical binding]; other site 360910004015 catalytic residues [active] 360910004017 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 360910004018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910004019 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 360910004020 substrate binding site [chemical binding]; other site 360910004021 dimerization interface [polypeptide binding]; other site 360910004023 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 360910004024 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 360910004025 NlpC/P60 family; Region: NLPC_P60; pfam00877 360910004027 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 360910004028 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 360910004029 acyl-activating enzyme (AAE) consensus motif; other site 360910004030 putative AMP binding site [chemical binding]; other site 360910004031 putative active site [active] 360910004032 putative CoA binding site [chemical binding]; other site 360910004035 Domain of unknown function (DUF336); Region: DUF336; cl01249 360910004036 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 360910004037 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 360910004038 putative substrate translocation pore; other site 360910004039 acetyl-CoA synthetase; Provisional; Region: PRK00174 360910004040 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 360910004041 active site 360910004042 CoA binding site [chemical binding]; other site 360910004043 acyl-activating enzyme (AAE) consensus motif; other site 360910004044 AMP binding site [chemical binding]; other site 360910004045 acetate binding site [chemical binding]; other site 360910004047 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 360910004048 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 360910004049 tetramer interface [polypeptide binding]; other site 360910004050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910004051 catalytic residue [active] 360910004052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910004053 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360910004054 NAD(P) binding site [chemical binding]; other site 360910004055 active site 360910004057 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 360910004058 hydroxyglutarate oxidase; Provisional; Region: PRK11728 360910004059 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 360910004060 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 360910004061 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 360910004062 active site 360910004063 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 360910004065 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 360910004068 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 360910004069 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 360910004070 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 360910004071 putative active site [active] 360910004072 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cd04512 360910004073 active site 360910004074 dimer interface [polypeptide binding]; other site 360910004075 catalytic nucleophile [active] 360910004076 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 360910004077 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910004078 Walker A/P-loop; other site 360910004079 ATP binding site [chemical binding]; other site 360910004080 Q-loop/lid; other site 360910004081 ABC transporter signature motif; other site 360910004082 Walker B; other site 360910004083 D-loop; other site 360910004084 H-loop/switch region; other site 360910004085 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910004086 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910004087 Walker A/P-loop; other site 360910004088 ATP binding site [chemical binding]; other site 360910004089 Q-loop/lid; other site 360910004090 ABC transporter signature motif; other site 360910004091 Walker B; other site 360910004092 D-loop; other site 360910004093 H-loop/switch region; other site 360910004094 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910004099 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 360910004100 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 360910004101 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 360910004102 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910004103 dimer interface [polypeptide binding]; other site 360910004104 conserved gate region; other site 360910004105 putative PBP binding loops; other site 360910004106 ABC-ATPase subunit interface; other site 360910004108 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 360910004109 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 360910004110 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910004111 dimer interface [polypeptide binding]; other site 360910004112 conserved gate region; other site 360910004113 putative PBP binding loops; other site 360910004114 ABC-ATPase subunit interface; other site 360910004115 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 360910004116 homodimer interface [polypeptide binding]; other site 360910004117 homotetramer interface [polypeptide binding]; other site 360910004118 active site pocket [active] 360910004119 cleavage site 360910004120 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 360910004121 SxDxEG motif; other site 360910004122 active site 360910004123 metal binding site [ion binding]; metal-binding site 360910004124 homopentamer interface [polypeptide binding]; other site 360910004125 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 360910004126 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 360910004127 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 360910004128 active site 360910004129 CTP synthetase; Validated; Region: pyrG; PRK05380 360910004130 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 360910004131 Catalytic site [active] 360910004132 active site 360910004133 UTP binding site [chemical binding]; other site 360910004134 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 360910004135 active site 360910004136 putative oxyanion hole; other site 360910004137 catalytic triad [active] 360910004139 enolase; Provisional; Region: eno; PRK00077 360910004140 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 360910004141 dimer interface [polypeptide binding]; other site 360910004142 metal binding site [ion binding]; metal-binding site 360910004143 substrate binding pocket [chemical binding]; other site 360910004145 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 360910004146 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 360910004147 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 360910004148 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 360910004149 dimerization interface [polypeptide binding]; other site 360910004150 domain crossover interface; other site 360910004151 redox-dependent activation switch; other site 360910004152 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 360910004153 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 360910004154 trimer interface [polypeptide binding]; other site 360910004155 putative metal binding site [ion binding]; other site 360910004156 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 360910004157 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 360910004158 active site 360910004159 acyl-activating enzyme (AAE) consensus motif; other site 360910004160 putative CoA binding site [chemical binding]; other site 360910004161 AMP binding site [chemical binding]; other site 360910004163 RDD family; Region: RDD; pfam06271 360910004164 Cupin domain; Region: Cupin_2; cl17218 360910004165 Helix-turn-helix domain; Region: HTH_18; pfam12833 360910004166 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910004168 2-isopropylmalate synthase; Validated; Region: PRK03739 360910004169 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 360910004170 active site 360910004171 catalytic residues [active] 360910004172 metal binding site [ion binding]; metal-binding site 360910004173 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 360910004176 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 360910004177 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 360910004178 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 360910004179 S-adenosylmethionine binding site [chemical binding]; other site 360910004182 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 360910004183 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 360910004184 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 360910004185 dimer interface [polypeptide binding]; other site 360910004186 active site 360910004187 citrylCoA binding site [chemical binding]; other site 360910004188 oxalacetate/citrate binding site [chemical binding]; other site 360910004189 coenzyme A binding site [chemical binding]; other site 360910004190 catalytic triad [active] 360910004192 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 360910004193 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 360910004194 tetramer interface [polypeptide binding]; other site 360910004195 active site 360910004196 Mg2+/Mn2+ binding site [ion binding]; other site 360910004197 malate dehydrogenase; Provisional; Region: PRK05442 360910004198 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 360910004199 NAD(P) binding site [chemical binding]; other site 360910004200 dimer interface [polypeptide binding]; other site 360910004201 malate binding site [chemical binding]; other site 360910004202 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 360910004203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910004204 DNA-binding site [nucleotide binding]; DNA binding site 360910004205 UTRA domain; Region: UTRA; pfam07702 360910004206 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 360910004207 Iron-sulfur protein interface; other site 360910004208 proximal quinone binding site [chemical binding]; other site 360910004209 SdhD (CybS) interface [polypeptide binding]; other site 360910004210 proximal heme binding site [chemical binding]; other site 360910004211 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 360910004212 SdhC subunit interface [polypeptide binding]; other site 360910004213 proximal heme binding site [chemical binding]; other site 360910004214 cardiolipin binding site; other site 360910004215 Iron-sulfur protein interface; other site 360910004216 proximal quinone binding site [chemical binding]; other site 360910004217 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 360910004218 L-aspartate oxidase; Provisional; Region: PRK06175 360910004219 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360910004221 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 360910004222 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360910004224 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 360910004225 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 360910004226 dimer interface [polypeptide binding]; other site 360910004227 active site 360910004228 citrylCoA binding site [chemical binding]; other site 360910004229 NADH binding [chemical binding]; other site 360910004230 cationic pore residues; other site 360910004231 oxalacetate/citrate binding site [chemical binding]; other site 360910004232 coenzyme A binding site [chemical binding]; other site 360910004233 catalytic triad [active] 360910004235 Cache domain; Region: Cache_1; pfam02743 360910004236 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910004237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910004238 metal binding site [ion binding]; metal-binding site 360910004239 active site 360910004240 I-site; other site 360910004241 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 360910004242 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910004243 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 360910004244 dimerization interface [polypeptide binding]; other site 360910004245 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 360910004246 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910004247 Walker A/P-loop; other site 360910004248 ATP binding site [chemical binding]; other site 360910004249 Q-loop/lid; other site 360910004250 ABC transporter signature motif; other site 360910004251 Walker B; other site 360910004252 D-loop; other site 360910004253 H-loop/switch region; other site 360910004254 TOBE domain; Region: TOBE_2; pfam08402 360910004257 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 360910004258 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910004259 conserved gate region; other site 360910004260 dimer interface [polypeptide binding]; other site 360910004261 putative PBP binding loops; other site 360910004262 ABC-ATPase subunit interface; other site 360910004263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910004264 dimer interface [polypeptide binding]; other site 360910004265 conserved gate region; other site 360910004266 putative PBP binding loops; other site 360910004267 ABC-ATPase subunit interface; other site 360910004268 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 360910004269 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 360910004270 motif II; other site 360910004271 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360910004272 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360910004273 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 360910004274 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 360910004275 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 360910004276 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 360910004277 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 360910004278 N-terminal plug; other site 360910004279 ligand-binding site [chemical binding]; other site 360910004280 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 360910004281 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 360910004282 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360910004283 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360910004284 putative NAD(P) binding site [chemical binding]; other site 360910004285 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 360910004288 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 360910004289 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 360910004290 dimer interface [polypeptide binding]; other site 360910004291 TPP-binding site [chemical binding]; other site 360910004292 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 360910004294 Predicted membrane protein [Function unknown]; Region: COG1297 360910004295 putative oligopeptide transporter, OPT family; Region: TIGR00733 360910004296 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 360910004297 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 360910004298 TPP-binding site [chemical binding]; other site 360910004299 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 360910004300 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 360910004301 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 360910004302 E3 interaction surface; other site 360910004303 lipoyl attachment site [posttranslational modification]; other site 360910004304 e3 binding domain; Region: E3_binding; pfam02817 360910004305 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 360910004307 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 360910004308 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910004309 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360910004311 Predicted ATPase [General function prediction only]; Region: COG1485 360910004314 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 360910004315 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360910004316 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910004317 DNA binding residues [nucleotide binding] 360910004318 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 360910004319 FecR protein; Region: FecR; pfam04773 360910004320 Secretin and TonB N terminus short domain; Region: STN; smart00965 360910004321 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 360910004322 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 360910004323 N-terminal plug; other site 360910004324 ligand-binding site [chemical binding]; other site 360910004326 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360910004327 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 360910004328 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360910004329 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 360910004330 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 360910004331 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 360910004332 active site 360910004333 HIGH motif; other site 360910004334 dimer interface [polypeptide binding]; other site 360910004335 KMSKS motif; other site 360910004336 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 360910004337 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 360910004338 DEAD/DEAH box helicase; Region: DEAD; pfam00270 360910004339 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 360910004341 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 360910004342 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 360910004343 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 360910004344 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 360910004345 RNA binding site [nucleotide binding]; other site 360910004346 NAD:arginine ADP-ribosyltransferase; Region: ART; pfam01129 360910004347 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360910004349 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 360910004351 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360910004352 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 360910004353 RNA binding surface [nucleotide binding]; other site 360910004354 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360910004355 active site 360910004357 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 360910004358 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 360910004359 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 360910004360 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 360910004361 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 360910004362 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 360910004363 NAD(P) binding site [chemical binding]; other site 360910004364 homotetramer interface [polypeptide binding]; other site 360910004365 homodimer interface [polypeptide binding]; other site 360910004366 active site 360910004368 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 360910004369 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 360910004370 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 360910004371 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 360910004372 Fe2+ transport protein; Region: Iron_transport; pfam10634 360910004373 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 360910004374 Iron permease FTR1 family; Region: FTR1; cl00475 360910004375 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 360910004376 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360910004377 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 360910004378 CsbD-like; Region: CsbD; cl17424 360910004379 cyanophycin synthetase; Provisional; Region: PRK14016 360910004380 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360910004381 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360910004382 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360910004383 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360910004385 cyanophycin synthetase; Provisional; Region: PRK14016 360910004386 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 360910004387 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360910004388 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360910004389 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 360910004390 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360910004391 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910004392 Walker A/P-loop; other site 360910004393 ATP binding site [chemical binding]; other site 360910004394 Q-loop/lid; other site 360910004395 ABC transporter signature motif; other site 360910004396 Walker B; other site 360910004397 D-loop; other site 360910004398 H-loop/switch region; other site 360910004401 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 360910004402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 360910004403 Protein of unknown function, DUF482; Region: DUF482; pfam04339 360910004404 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 360910004405 dinuclear metal binding motif [ion binding]; other site 360910004406 Transglycosylase SLT domain; Region: SLT_2; pfam13406 360910004407 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 360910004408 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360910004409 catalytic residue [active] 360910004410 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 360910004411 Cache domain; Region: Cache_1; pfam02743 360910004412 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910004413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910004414 metal binding site [ion binding]; metal-binding site 360910004415 active site 360910004416 I-site; other site 360910004417 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360910004418 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360910004419 O antigen biosynthesis locus 360910004420 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 360910004421 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 360910004422 NAD binding site [chemical binding]; other site 360910004423 substrate binding site [chemical binding]; other site 360910004424 homodimer interface [polypeptide binding]; other site 360910004425 active site 360910004427 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 360910004428 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 360910004429 substrate binding site; other site 360910004430 tetramer interface; other site 360910004431 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 360910004432 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 360910004433 Ligand binding site; other site 360910004434 Putative Catalytic site; other site 360910004435 DXD motif; other site 360910004436 Predicted membrane protein [Function unknown]; Region: COG2246 360910004437 GtrA-like protein; Region: GtrA; pfam04138 360910004438 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 360910004439 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 360910004440 PYR/PP interface [polypeptide binding]; other site 360910004441 dimer interface [polypeptide binding]; other site 360910004442 TPP binding site [chemical binding]; other site 360910004443 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360910004444 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 360910004445 TPP-binding site [chemical binding]; other site 360910004446 dimer interface [polypeptide binding]; other site 360910004447 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360910004448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910004449 NAD(P) binding site [chemical binding]; other site 360910004450 active site 360910004451 Phosphotransferase enzyme family; Region: APH; pfam01636 360910004452 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 360910004453 substrate binding site [chemical binding]; other site 360910004454 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 360910004455 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 360910004456 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 360910004457 NAD binding site [chemical binding]; other site 360910004458 homotetramer interface [polypeptide binding]; other site 360910004459 homodimer interface [polypeptide binding]; other site 360910004460 substrate binding site [chemical binding]; other site 360910004461 active site 360910004462 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 360910004463 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 360910004464 substrate binding site; other site 360910004465 O-antigen acetylase 360910004466 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 360910004467 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 360910004468 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 360910004469 putative substrate binding pocket [chemical binding]; other site 360910004470 trimer interface [polypeptide binding]; other site 360910004471 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 360910004472 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360910004473 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 360910004474 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 360910004475 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 360910004476 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 360910004477 NAD binding site [chemical binding]; other site 360910004478 catalytic residues [active] 360910004482 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 360910004483 homotrimer interaction site [polypeptide binding]; other site 360910004484 putative active site [active] 360910004486 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 360910004487 homotrimer interaction site [polypeptide binding]; other site 360910004488 putative active site [active] 360910004490 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 360910004491 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 360910004492 tetramer interface [polypeptide binding]; other site 360910004493 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 360910004494 tetramer interface [polypeptide binding]; other site 360910004495 active site 360910004496 metal binding site [ion binding]; metal-binding site 360910004497 putative amidase; Provisional; Region: PRK06169 360910004498 Amidase; Region: Amidase; cl11426 360910004501 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910004502 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910004503 Walker A/P-loop; other site 360910004504 ATP binding site [chemical binding]; other site 360910004505 Q-loop/lid; other site 360910004506 ABC transporter signature motif; other site 360910004507 Walker B; other site 360910004508 D-loop; other site 360910004509 H-loop/switch region; other site 360910004512 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910004513 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 360910004514 TM-ABC transporter signature motif; other site 360910004515 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910004516 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910004517 Walker A/P-loop; other site 360910004518 ATP binding site [chemical binding]; other site 360910004519 Q-loop/lid; other site 360910004520 ABC transporter signature motif; other site 360910004521 Walker B; other site 360910004522 D-loop; other site 360910004523 H-loop/switch region; other site 360910004525 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 360910004526 TM-ABC transporter signature motif; other site 360910004527 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 360910004528 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 360910004529 putative ligand binding site [chemical binding]; other site 360910004530 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360910004531 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 360910004532 ligand binding site [chemical binding]; other site 360910004533 flexible hinge region; other site 360910004534 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 360910004535 non-specific DNA interactions [nucleotide binding]; other site 360910004536 DNA binding site [nucleotide binding] 360910004537 sequence specific DNA binding site [nucleotide binding]; other site 360910004538 putative cAMP binding site [chemical binding]; other site 360910004539 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 360910004540 prophage Ba1-2 360910004541 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 360910004542 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 360910004543 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 360910004544 Int/Topo IB signature motif; other site 360910004546 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 360910004547 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 360910004548 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 360910004549 cofactor binding site; other site 360910004550 DNA binding site [nucleotide binding] 360910004551 substrate interaction site [chemical binding]; other site 360910004552 Methyltransferase domain; Region: Methyltransf_25; pfam13649 360910004553 recombination associated protein; Reviewed; Region: rdgC; PRK00321 360910004554 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 360910004556 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360910004558 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 360910004559 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 360910004560 non-specific DNA binding site [nucleotide binding]; other site 360910004561 salt bridge; other site 360910004562 sequence-specific DNA binding site [nucleotide binding]; other site 360910004563 Predicted transcriptional regulator [Transcription]; Region: COG2932 360910004564 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 360910004565 Catalytic site [active] 360910004566 Bacteriophage CII protein; Region: Phage_CII; pfam05269 360910004567 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 360910004568 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 360910004569 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 360910004570 BRO family, N-terminal domain; Region: Bro-N; smart01040 360910004571 ORF11CD3 domain; Region: ORF11CD3; pfam10549 360910004572 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 360910004573 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 360910004574 non-specific DNA binding site [nucleotide binding]; other site 360910004575 salt bridge; other site 360910004576 sequence-specific DNA binding site [nucleotide binding]; other site 360910004577 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 360910004578 Terminase small subunit; Region: Terminase_2; pfam03592 360910004579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 360910004580 Terminase-like family; Region: Terminase_6; pfam03237 360910004581 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 360910004582 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 360910004583 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 360910004584 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 360910004585 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 360910004586 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 360910004587 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 360910004588 hypothetical protein; Region: PHA02310 360910004589 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 360910004592 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 360910004593 Baseplate J-like protein; Region: Baseplate_J; cl01294 360910004594 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 360910004595 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 360910004596 catalytic residues [active] 360910004597 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 360910004598 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 360910004599 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 360910004600 putative substrate translocation pore; other site 360910004601 phosphoglycolate phosphatase; Provisional; Region: PRK13222 360910004602 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 360910004603 motif II; other site 360910004604 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 360910004605 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 360910004606 S-adenosylmethionine binding site [chemical binding]; other site 360910004607 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360910004608 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360910004609 ligand binding site [chemical binding]; other site 360910004611 DNA gyrase subunit A; Validated; Region: PRK05560 360910004612 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 360910004613 CAP-like domain; other site 360910004614 active site 360910004615 primary dimer interface [polypeptide binding]; other site 360910004616 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360910004617 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360910004618 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360910004619 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360910004620 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360910004621 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360910004622 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 360910004623 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360910004624 catalytic residue [active] 360910004626 Chorismate mutase type II; Region: CM_2; cl00693 360910004627 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 360910004628 Prephenate dehydratase; Region: PDT; pfam00800 360910004629 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 360910004630 putative L-Phe binding site [chemical binding]; other site 360910004632 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 360910004633 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 360910004634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910004635 homodimer interface [polypeptide binding]; other site 360910004636 catalytic residue [active] 360910004639 prephenate dehydrogenase; Validated; Region: PRK08507 360910004640 Prephenate dehydrogenase; Region: PDH; pfam02153 360910004641 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 360910004642 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 360910004643 hinge; other site 360910004644 active site 360910004647 cytidylate kinase; Provisional; Region: cmk; PRK00023 360910004648 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 360910004649 CMP-binding site; other site 360910004650 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 360910004651 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 360910004652 RNA binding site [nucleotide binding]; other site 360910004653 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 360910004654 RNA binding site [nucleotide binding]; other site 360910004655 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 360910004656 RNA binding site [nucleotide binding]; other site 360910004657 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 360910004658 RNA binding site [nucleotide binding]; other site 360910004659 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 360910004660 RNA binding site [nucleotide binding]; other site 360910004661 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 360910004662 RNA binding site [nucleotide binding]; other site 360910004663 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 360910004664 IHF dimer interface [polypeptide binding]; other site 360910004665 IHF - DNA interface [nucleotide binding]; other site 360910004666 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 360910004667 tetratricopeptide repeat protein; Provisional; Region: PRK11788 360910004668 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 360910004669 binding surface 360910004670 TPR motif; other site 360910004671 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 360910004672 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 360910004673 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 360910004674 putative ribose interaction site [chemical binding]; other site 360910004675 putative ADP binding site [chemical binding]; other site 360910004677 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 360910004678 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 360910004679 NADP binding site [chemical binding]; other site 360910004680 homopentamer interface [polypeptide binding]; other site 360910004681 substrate binding site [chemical binding]; other site 360910004682 active site 360910004683 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 360910004684 cysteine synthase B; Region: cysM; TIGR01138 360910004685 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 360910004686 dimer interface [polypeptide binding]; other site 360910004687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910004688 catalytic residue [active] 360910004690 Transglycosylase SLT domain; Region: SLT_2; pfam13406 360910004691 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 360910004692 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360910004694 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 360910004695 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 360910004696 putative active site [active] 360910004697 Zn binding site [ion binding]; other site 360910004698 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 360910004699 Ligand binding site [chemical binding]; other site 360910004700 Electron transfer flavoprotein domain; Region: ETF; pfam01012 360910004702 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 360910004703 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 360910004704 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 360910004706 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 360910004707 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 360910004708 TrkA-C domain; Region: TrkA_C; pfam02080 360910004709 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 360910004710 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 360910004711 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 360910004712 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360910004713 active site 360910004714 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 360910004715 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360910004716 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 360910004717 dimer interface [polypeptide binding]; other site 360910004718 decamer (pentamer of dimers) interface [polypeptide binding]; other site 360910004719 catalytic triad [active] 360910004720 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 360910004721 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 360910004722 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 360910004724 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 360910004725 putative active site [active] 360910004726 putative CoA binding site [chemical binding]; other site 360910004727 nudix motif; other site 360910004728 metal binding site [ion binding]; metal-binding site 360910004729 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 360910004730 GTPase RsgA; Reviewed; Region: PRK00098 360910004731 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 360910004732 RNA binding site [nucleotide binding]; other site 360910004733 homodimer interface [polypeptide binding]; other site 360910004734 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 360910004735 GTPase/Zn-binding domain interface [polypeptide binding]; other site 360910004736 GTP/Mg2+ binding site [chemical binding]; other site 360910004737 G4 box; other site 360910004738 G5 box; other site 360910004739 G1 box; other site 360910004740 Switch I region; other site 360910004741 G2 box; other site 360910004742 G3 box; other site 360910004743 Switch II region; other site 360910004745 Peptidase family M48; Region: Peptidase_M48; pfam01435 360910004746 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 360910004747 catalytic site [active] 360910004748 putative active site [active] 360910004749 putative substrate binding site [chemical binding]; other site 360910004750 dimer interface [polypeptide binding]; other site 360910004751 PaaX-like protein; Region: PaaX; pfam07848 360910004752 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 360910004753 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 360910004755 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 360910004756 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 360910004757 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 360910004758 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 360910004759 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 360910004760 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 360910004761 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 360910004762 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 360910004763 FAD binding pocket [chemical binding]; other site 360910004764 FAD binding motif [chemical binding]; other site 360910004765 phosphate binding motif [ion binding]; other site 360910004766 beta-alpha-beta structure motif; other site 360910004767 NAD(p) ribose binding residues [chemical binding]; other site 360910004768 NAD binding pocket [chemical binding]; other site 360910004769 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 360910004770 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 360910004771 catalytic loop [active] 360910004772 iron binding site [ion binding]; other site 360910004774 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 360910004775 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 360910004776 NADP binding site [chemical binding]; other site 360910004777 catalytic residues [active] 360910004778 enoyl-CoA hydratase; Provisional; Region: PRK08140 360910004779 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 360910004780 substrate binding site [chemical binding]; other site 360910004781 oxyanion hole (OAH) forming residues; other site 360910004782 trimer interface [polypeptide binding]; other site 360910004783 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 360910004784 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 360910004785 CoenzymeA binding site [chemical binding]; other site 360910004786 subunit interaction site [polypeptide binding]; other site 360910004787 PHB binding site; other site 360910004788 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 360910004789 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 360910004790 active site 360910004791 AMP binding site [chemical binding]; other site 360910004792 homodimer interface [polypeptide binding]; other site 360910004793 acyl-activating enzyme (AAE) consensus motif; other site 360910004794 CoA binding site [chemical binding]; other site 360910004795 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 360910004796 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 360910004797 FeS/SAM binding site; other site 360910004798 HemN C-terminal domain; Region: HemN_C; pfam06969 360910004799 Response regulator receiver domain; Region: Response_reg; pfam00072 360910004800 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 360910004801 active site 360910004802 phosphorylation site [posttranslational modification] 360910004803 intermolecular recognition site; other site 360910004804 dimerization interface [polypeptide binding]; other site 360910004805 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 360910004806 DNA binding residues [nucleotide binding] 360910004808 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 360910004809 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 360910004810 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 360910004811 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 360910004812 active site 360910004813 dimer interface [polypeptide binding]; other site 360910004814 motif 1; other site 360910004815 motif 2; other site 360910004816 motif 3; other site 360910004817 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 360910004818 anticodon binding site; other site 360910004821 translation initiation factor IF-3; Region: infC; TIGR00168 360910004822 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 360910004823 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 360910004825 glutathione synthetase; Provisional; Region: PRK05246 360910004826 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 360910004827 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 360910004828 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 360910004829 active pocket/dimerization site; other site 360910004830 active site 360910004831 phosphorylation site [posttranslational modification] 360910004832 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 360910004833 dimerization domain swap beta strand [polypeptide binding]; other site 360910004834 regulatory protein interface [polypeptide binding]; other site 360910004835 active site 360910004836 regulatory phosphorylation site [posttranslational modification]; other site 360910004839 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 360910004840 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 360910004841 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 360910004842 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 360910004845 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 360910004846 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 360910004847 ornithine cyclodeaminase; Validated; Region: PRK06141 360910004848 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 360910004849 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360910004850 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 360910004851 putative ligand binding site [chemical binding]; other site 360910004852 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360910004853 trimer interface [polypeptide binding]; other site 360910004854 active site 360910004855 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360910004856 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 360910004857 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 360910004858 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 360910004859 active site pocket [active] 360910004860 oxyanion hole [active] 360910004861 catalytic triad [active] 360910004862 active site nucleophile [active] 360910004863 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910004864 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 360910004865 putative DNA binding site [nucleotide binding]; other site 360910004866 putative Zn2+ binding site [ion binding]; other site 360910004867 AsnC family; Region: AsnC_trans_reg; pfam01037 360910004869 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 360910004870 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 360910004871 Flavoprotein; Region: Flavoprotein; pfam02441 360910004872 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 360910004874 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 360910004876 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 360910004877 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360910004878 active site 360910004879 HIGH motif; other site 360910004880 nucleotide binding site [chemical binding]; other site 360910004881 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360910004882 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 360910004883 active site 360910004884 KMSKS motif; other site 360910004885 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 360910004886 tRNA binding surface [nucleotide binding]; other site 360910004887 anticodon binding site; other site 360910004888 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 360910004890 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 360910004891 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 360910004892 active site 360910004893 Riboflavin kinase; Region: Flavokinase; smart00904 360910004894 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 360910004895 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 360910004896 active site 360910004897 substrate binding site [chemical binding]; other site 360910004898 cosubstrate binding site; other site 360910004899 catalytic site [active] 360910004900 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 360910004901 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 360910004902 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 360910004903 Fatty acid desaturase; Region: FA_desaturase; pfam00487 360910004904 Di-iron ligands [ion binding]; other site 360910004905 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 360910004906 Part of AAA domain; Region: AAA_19; pfam13245 360910004907 Family description; Region: UvrD_C_2; pfam13538 360910004909 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910004910 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 360910004911 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910004912 ABC transporter; Region: ABC_tran_2; pfam12848 360910004913 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910004918 HemK family putative methylases; Region: hemK_fam; TIGR00536 360910004919 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 360910004920 S-adenosylmethionine binding site [chemical binding]; other site 360910004922 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 360910004923 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 360910004924 metal binding site [ion binding]; metal-binding site 360910004925 dimer interface [polypeptide binding]; other site 360910004926 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 360910004927 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 360910004928 trimer interface [polypeptide binding]; other site 360910004929 active site 360910004930 substrate binding site [chemical binding]; other site 360910004931 CoA binding site [chemical binding]; other site 360910004933 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 360910004934 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 360910004935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910004936 homodimer interface [polypeptide binding]; other site 360910004937 catalytic residue [active] 360910004939 prophage 3 360910004940 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 360910004941 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 360910004942 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 360910004943 active site 360910004944 DNA binding site [nucleotide binding] 360910004945 Int/Topo IB signature motif; other site 360910004946 RecT family; Region: RecT; cl04285 360910004947 exonuclease VIII; Reviewed; Region: PRK09709 360910004949 Prophage antirepressor [Transcription]; Region: COG3617 360910004950 BRO family, N-terminal domain; Region: Bro-N; smart01040 360910004951 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 360910004952 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 360910004954 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 360910004955 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 360910004956 non-specific DNA binding site [nucleotide binding]; other site 360910004957 salt bridge; other site 360910004958 sequence-specific DNA binding site [nucleotide binding]; other site 360910004959 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 360910004960 salt bridge; other site 360910004961 non-specific DNA binding site [nucleotide binding]; other site 360910004962 sequence-specific DNA binding site [nucleotide binding]; other site 360910004964 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 360910004965 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 360910004967 Prophage antirepressor [Transcription]; Region: COG3617 360910004968 BRO family, N-terminal domain; Region: Bro-N; smart01040 360910004969 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 360910004970 Protein of unknown function (DUF497); Region: DUF497; pfam04365 360910004971 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 360910004972 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 360910004973 active site 360910004976 Phage terminase, small subunit; Region: Terminase_4; pfam05119 360910004977 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 360910004978 Phage-related protein [Function unknown]; Region: COG4695 360910004979 Phage portal protein; Region: Phage_portal; pfam04860 360910004980 Phage head maturation protease [General function prediction only]; Region: COG3740 360910004981 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 360910004982 Phage capsid family; Region: Phage_capsid; pfam05065 360910004983 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 360910004984 oligomerization interface [polypeptide binding]; other site 360910004985 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 360910004986 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 360910004987 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 360910004988 Phage tail protein; Region: Phage_tail_3; pfam08813 360910004989 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 360910004990 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 360910004991 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 360910004992 Phage-related minor tail protein [Function unknown]; Region: COG5281 360910004993 Phage tail repeat like; Region: PTR; pfam12789 360910004994 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 360910004995 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 360910004996 catalytic residue [active] 360910004997 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]; Region: COG3620 360910004998 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 360910004999 non-specific DNA binding site [nucleotide binding]; other site 360910005000 salt bridge; other site 360910005001 sequence-specific DNA binding site [nucleotide binding]; other site 360910005002 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 360910005003 Domain of unknown function (DUF333); Region: DUF333; pfam03891 360910005004 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 360910005005 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 360910005006 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 360910005009 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 360910005010 DNA-binding site [nucleotide binding]; DNA binding site 360910005011 RNA-binding motif; other site 360910005013 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 360910005014 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 360910005015 DNA-binding site [nucleotide binding]; DNA binding site 360910005016 RNA-binding motif; other site 360910005018 hypothetical protein; Provisional; Region: PRK05208 360910005019 trigger factor; Provisional; Region: tig; PRK01490 360910005020 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360910005021 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 360910005023 Clp protease; Region: CLP_protease; pfam00574 360910005024 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 360910005025 oligomer interface [polypeptide binding]; other site 360910005026 active site residues [active] 360910005028 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 360910005029 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 360910005030 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 360910005031 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910005032 Walker A motif; other site 360910005033 ATP binding site [chemical binding]; other site 360910005034 Walker B motif; other site 360910005035 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360910005037 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 360910005038 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910005039 Walker A motif; other site 360910005040 ATP binding site [chemical binding]; other site 360910005041 Walker B motif; other site 360910005042 arginine finger; other site 360910005043 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 360910005046 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 360910005047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910005048 DNA-binding site [nucleotide binding]; DNA binding site 360910005049 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 360910005050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910005051 homodimer interface [polypeptide binding]; other site 360910005052 catalytic residue [active] 360910005053 benzoate transporter; Region: benE; TIGR00843 360910005054 Benzoate membrane transport protein; Region: BenE; pfam03594 360910005055 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 360910005056 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 360910005057 putative substrate translocation pore; other site 360910005058 LexA repressor; Validated; Region: PRK00215 360910005059 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 360910005060 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 360910005061 Catalytic site [active] 360910005062 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 360910005063 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 360910005064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910005065 homodimer interface [polypeptide binding]; other site 360910005066 catalytic residue [active] 360910005068 excinuclease ABC subunit B; Provisional; Region: PRK05298 360910005069 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 360910005070 ATP binding site [chemical binding]; other site 360910005071 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 360910005072 nucleotide binding region [chemical binding]; other site 360910005073 ATP-binding site [chemical binding]; other site 360910005074 Ultra-violet resistance protein B; Region: UvrB; pfam12344 360910005076 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 360910005077 Low molecular weight phosphatase family; Region: LMWPc; cd00115 360910005078 active site 360910005079 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 360910005080 Rrf2 family protein; Region: rrf2_super; TIGR00738 360910005081 cysteine desulfurase; Provisional; Region: PRK14012 360910005082 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 360910005083 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360910005084 catalytic residue [active] 360910005086 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 360910005087 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 360910005088 trimerization site [polypeptide binding]; other site 360910005089 active site 360910005090 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 360910005092 co-chaperone HscB; Provisional; Region: hscB; PRK03578 360910005093 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 360910005094 HSP70 interaction site [polypeptide binding]; other site 360910005095 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 360910005096 chaperone protein HscA; Provisional; Region: hscA; PRK05183 360910005097 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 360910005098 nucleotide binding site [chemical binding]; other site 360910005099 putative NEF/HSP70 interaction site [polypeptide binding]; other site 360910005100 SBD interface [polypeptide binding]; other site 360910005104 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 360910005105 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 360910005106 catalytic loop [active] 360910005107 iron binding site [ion binding]; other site 360910005110 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 360910005111 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 360910005112 substrate binding site [chemical binding]; other site 360910005115 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 360910005116 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 360910005117 dimer interface [polypeptide binding]; other site 360910005118 putative anticodon binding site; other site 360910005119 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 360910005120 motif 1; other site 360910005121 active site 360910005122 motif 2; other site 360910005123 motif 3; other site 360910005126 short chain dehydrogenase; Provisional; Region: PRK07023 360910005127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910005128 NAD(P) binding site [chemical binding]; other site 360910005129 active site 360910005130 peptide chain release factor 2; Validated; Region: prfB; PRK00578 360910005131 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360910005132 RF-1 domain; Region: RF-1; pfam00472 360910005133 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 360910005134 DHH family; Region: DHH; pfam01368 360910005135 DHHA1 domain; Region: DHHA1; pfam02272 360910005136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 360910005137 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 360910005138 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360910005139 FtsX-like permease family; Region: FtsX; pfam02687 360910005141 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 360910005142 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360910005143 Walker A/P-loop; other site 360910005144 ATP binding site [chemical binding]; other site 360910005145 Q-loop/lid; other site 360910005146 ABC transporter signature motif; other site 360910005147 Walker B; other site 360910005148 D-loop; other site 360910005149 H-loop/switch region; other site 360910005152 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 360910005153 active site 360910005155 S4 domain; Region: S4_2; pfam13275 360910005156 Restriction endonuclease; Region: Mrr_cat; pfam04471 360910005157 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910005158 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 360910005159 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 360910005160 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910005161 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910005163 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 360910005164 Isochorismatase family; Region: Isochorismatase; pfam00857 360910005165 catalytic triad [active] 360910005166 conserved cis-peptide bond; other site 360910005167 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 360910005169 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910005170 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360910005171 hypothetical protein; Provisional; Region: PRK06847 360910005172 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360910005173 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 360910005174 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 360910005175 catalytic loop [active] 360910005176 iron binding site [ion binding]; other site 360910005177 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 360910005180 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360910005181 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 360910005185 benzoate transport; Region: 2A0115; TIGR00895 360910005186 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 360910005187 putative substrate translocation pore; other site 360910005188 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 360910005190 MarR family; Region: MarR_2; cl17246 360910005191 Transcriptional regulators [Transcription]; Region: MarR; COG1846 360910005192 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910005193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910005194 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 360910005195 dimerization interface [polypeptide binding]; other site 360910005197 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 360910005198 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 360910005199 putative substrate translocation pore; other site 360910005200 Uncharacterized conserved protein [Function unknown]; Region: COG5476 360910005201 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 360910005202 MlrC C-terminus; Region: MlrC_C; pfam07171 360910005203 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 360910005204 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 360910005205 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 360910005206 Competence protein; Region: Competence; pfam03772 360910005207 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 360910005208 Sensors of blue-light using FAD; Region: BLUF; pfam04940 360910005209 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 360910005212 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 360910005213 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 360910005215 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 360910005216 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 360910005217 active site 360910005218 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 360910005219 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 360910005220 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 360910005221 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 360910005224 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 360910005225 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 360910005226 dimerization interface [polypeptide binding]; other site 360910005227 ATP binding site [chemical binding]; other site 360910005228 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 360910005229 dimerization interface [polypeptide binding]; other site 360910005230 ATP binding site [chemical binding]; other site 360910005231 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 360910005232 putative active site [active] 360910005233 catalytic triad [active] 360910005234 hypothetical protein 360910005235 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360910005236 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360910005237 hypothetical protein; Provisional; Region: PRK07907 360910005238 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 360910005239 metal binding site [ion binding]; metal-binding site 360910005240 putative dimer interface [polypeptide binding]; other site 360910005241 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 360910005242 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 360910005243 Methyltransferase domain; Region: Methyltransf_32; pfam13679 360910005244 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360910005246 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 360910005247 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 360910005248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 360910005249 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 360910005250 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 360910005251 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 360910005252 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 360910005253 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 360910005254 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910005255 Walker A/P-loop; other site 360910005256 ATP binding site [chemical binding]; other site 360910005257 Q-loop/lid; other site 360910005258 ABC transporter signature motif; other site 360910005259 Walker B; other site 360910005260 D-loop; other site 360910005261 H-loop/switch region; other site 360910005262 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 360910005265 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 360910005266 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910005267 Walker A/P-loop; other site 360910005268 ATP binding site [chemical binding]; other site 360910005269 Q-loop/lid; other site 360910005270 ABC transporter signature motif; other site 360910005271 Walker B; other site 360910005272 D-loop; other site 360910005273 H-loop/switch region; other site 360910005274 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910005277 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 360910005278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910005279 dimer interface [polypeptide binding]; other site 360910005280 conserved gate region; other site 360910005281 putative PBP binding loops; other site 360910005282 ABC-ATPase subunit interface; other site 360910005284 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910005285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910005286 dimer interface [polypeptide binding]; other site 360910005287 conserved gate region; other site 360910005288 putative PBP binding loops; other site 360910005289 ABC-ATPase subunit interface; other site 360910005290 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 360910005291 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 360910005292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910005293 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910005294 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 360910005295 dimerization interface [polypeptide binding]; other site 360910005296 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 360910005297 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 360910005298 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 360910005299 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 360910005300 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 360910005301 active site 360910005303 GMP synthase; Reviewed; Region: guaA; PRK00074 360910005304 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 360910005305 AMP/PPi binding site [chemical binding]; other site 360910005306 candidate oxyanion hole; other site 360910005307 catalytic triad [active] 360910005308 potential glutamine specificity residues [chemical binding]; other site 360910005309 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 360910005310 ATP Binding subdomain [chemical binding]; other site 360910005311 Ligand Binding sites [chemical binding]; other site 360910005312 Dimerization subdomain; other site 360910005314 phage integrase (pseudogene) 360910005316 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 360910005317 Autotransporter beta-domain; Region: Autotransporter; pfam03797 360910005319 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 360910005320 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 360910005321 Chromate transporter; Region: Chromate_transp; pfam02417 360910005322 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 360910005323 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 360910005324 catalytic loop [active] 360910005325 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360910005326 iron binding site [ion binding]; other site 360910005327 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 360910005328 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 360910005329 putative hydrophobic ligand binding site [chemical binding]; other site 360910005332 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 360910005333 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 360910005334 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 360910005335 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910005336 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 360910005337 DctM-like transporters; Region: DctM; pfam06808 360910005338 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 360910005339 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 360910005340 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 360910005341 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 a...; Region: Rieske_RO_ferredoxin; cd03528 360910005342 [2Fe-2S] cluster binding site [ion binding]; other site 360910005343 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 360910005344 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910005346 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 360910005347 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 360910005348 iron-sulfur cluster [ion binding]; other site 360910005349 [2Fe-2S] cluster binding site [ion binding]; other site 360910005350 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 360910005351 putative alpha subunit interface [polypeptide binding]; other site 360910005352 putative active site [active] 360910005353 putative substrate binding site [chemical binding]; other site 360910005354 Fe binding site [ion binding]; other site 360910005356 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 360910005357 inter-subunit interface; other site 360910005358 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910005359 MarR family; Region: MarR; pfam01047 360910005360 MarR family; Region: MarR_2; cl17246 360910005361 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 360910005362 putative substrate translocation pore; other site 360910005363 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360910005365 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 360910005366 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 360910005367 XdhC Rossmann domain; Region: XdhC_C; pfam13478 360910005368 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 360910005369 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360910005370 DNA binding residues [nucleotide binding] 360910005371 Protein of unknown function, DUF393; Region: DUF393; pfam04134 360910005372 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 360910005373 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 360910005375 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 360910005376 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 360910005377 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 360910005378 GIY-YIG motif/motif A; other site 360910005379 active site 360910005380 catalytic site [active] 360910005381 putative DNA binding site [nucleotide binding]; other site 360910005382 metal binding site [ion binding]; metal-binding site 360910005383 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 360910005384 methionine synthase; Provisional; Region: PRK01207 360910005385 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 360910005386 substrate binding site [chemical binding]; other site 360910005387 THF binding site; other site 360910005388 zinc-binding site [ion binding]; other site 360910005389 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 360910005390 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 360910005391 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 360910005392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910005393 Coenzyme A binding pocket [chemical binding]; other site 360910005394 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 360910005395 GTP cyclohydrolase I; Provisional; Region: PLN03044 360910005396 active site 360910005397 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 360910005398 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360910005399 DNA binding residues [nucleotide binding] 360910005400 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 360910005401 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360910005402 catalytic residue [active] 360910005403 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 360910005404 dimer interface [polypeptide binding]; other site 360910005405 pyridoxamine kinase; Validated; Region: PRK05756 360910005406 pyridoxal binding site [chemical binding]; other site 360910005407 ATP binding site [chemical binding]; other site 360910005408 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 360910005409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910005410 DNA-binding site [nucleotide binding]; DNA binding site 360910005411 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 360910005412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910005413 homodimer interface [polypeptide binding]; other site 360910005414 catalytic residue [active] 360910005416 Part of AAA domain; Region: AAA_19; pfam13245 360910005417 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 360910005418 AAA domain; Region: AAA_12; pfam13087 360910005419 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 360910005420 putative active site [active] 360910005424 Predicted membrane protein [Function unknown]; Region: COG2323 360910005425 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910005427 Helix-turn-helix domain; Region: HTH_17; pfam12728 360910005428 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 360910005429 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 360910005430 putative substrate translocation pore; other site 360910005431 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 360910005432 dimerization interface [polypeptide binding]; other site 360910005433 putative DNA binding site [nucleotide binding]; other site 360910005434 putative Zn2+ binding site [ion binding]; other site 360910005435 lysine transporter; Provisional; Region: PRK10836 360910005437 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 360910005438 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 360910005439 putative substrate translocation pore; other site 360910005440 SapC; Region: SapC; pfam07277 360910005441 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 360910005442 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 360910005443 putative substrate translocation pore; other site 360910005444 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360910005445 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910005446 Coenzyme A binding pocket [chemical binding]; other site 360910005447 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 360910005448 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 360910005449 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 360910005451 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 360910005452 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 360910005453 glutathione reductase; Validated; Region: PRK06116 360910005454 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360910005455 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910005456 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360910005458 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 360910005459 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910005460 DNA-binding site [nucleotide binding]; DNA binding site 360910005461 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 360910005462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910005463 homodimer interface [polypeptide binding]; other site 360910005464 catalytic residue [active] 360910005465 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 360910005466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360910005467 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 360910005468 catalytic residues [active] 360910005469 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 360910005470 active site 360910005471 substrate-binding site [chemical binding]; other site 360910005472 metal-binding site [ion binding] 360910005473 GTP binding site [chemical binding]; other site 360910005475 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 360910005476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 360910005477 Walker A/P-loop; other site 360910005478 ATP binding site [chemical binding]; other site 360910005479 Q-loop/lid; other site 360910005480 ABC transporter signature motif; other site 360910005481 Walker B; other site 360910005482 D-loop; other site 360910005483 H-loop/switch region; other site 360910005485 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 360910005486 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 360910005487 putative active site [active] 360910005488 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 360910005489 putative catalytic site [active] 360910005490 putative phosphate binding site [ion binding]; other site 360910005491 active site 360910005492 metal binding site A [ion binding]; metal-binding site 360910005493 DNA binding site [nucleotide binding] 360910005494 putative AP binding site [nucleotide binding]; other site 360910005495 putative metal binding site B [ion binding]; other site 360910005497 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360910005498 Heavy-metal-associated domain; Region: HMA; pfam00403 360910005499 metal-binding site [ion binding] 360910005500 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360910005504 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 360910005505 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 360910005506 DNA binding residues [nucleotide binding] 360910005507 dimer interface [polypeptide binding]; other site 360910005508 putative metal binding site [ion binding]; other site 360910005509 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 360910005510 putative FMN binding site [chemical binding]; other site 360910005511 argininosuccinate lyase; Provisional; Region: PRK00855 360910005512 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 360910005513 active sites [active] 360910005514 tetramer interface [polypeptide binding]; other site 360910005516 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360910005517 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360910005518 NAD synthetase; Provisional; Region: PRK13981 360910005519 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 360910005520 multimer interface [polypeptide binding]; other site 360910005521 active site 360910005522 catalytic triad [active] 360910005523 protein interface 1 [polypeptide binding]; other site 360910005524 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 360910005525 homodimer interface [polypeptide binding]; other site 360910005526 NAD binding pocket [chemical binding]; other site 360910005527 ATP binding pocket [chemical binding]; other site 360910005528 Mg binding site [ion binding]; other site 360910005529 active-site loop [active] 360910005530 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 360910005531 Nitrogen regulatory protein P-II; Region: P-II; smart00938 360910005534 Also similar to the adjacent CDS, BAV1641, (~50 identity). 360910005537 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 360910005538 catalytic triad [active] 360910005539 putative active site [active] 360910005540 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 360910005541 catalytic residues [active] 360910005542 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 360910005543 Autotransporter beta-domain; Region: Autotransporter; smart00869 360910005544 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910005545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910005546 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 360910005547 dimerization interface [polypeptide binding]; other site 360910005549 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 360910005550 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 360910005551 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360910005552 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_5; cd08511 360910005553 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910005554 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910005555 dimer interface [polypeptide binding]; other site 360910005556 conserved gate region; other site 360910005557 putative PBP binding loops; other site 360910005558 ABC-ATPase subunit interface; other site 360910005560 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 360910005561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910005562 dimer interface [polypeptide binding]; other site 360910005563 conserved gate region; other site 360910005564 putative PBP binding loops; other site 360910005565 ABC-ATPase subunit interface; other site 360910005568 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 360910005569 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910005570 Walker A/P-loop; other site 360910005571 ATP binding site [chemical binding]; other site 360910005572 Q-loop/lid; other site 360910005573 ABC transporter signature motif; other site 360910005574 Walker B; other site 360910005575 D-loop; other site 360910005576 H-loop/switch region; other site 360910005577 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 360910005578 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910005579 Walker A/P-loop; other site 360910005580 ATP binding site [chemical binding]; other site 360910005581 Q-loop/lid; other site 360910005582 ABC transporter signature motif; other site 360910005583 Walker B; other site 360910005584 D-loop; other site 360910005585 H-loop/switch region; other site 360910005586 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910005591 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360910005592 YaeQ protein; Region: YaeQ; pfam07152 360910005593 Chorismate lyase; Region: Chor_lyase; cl01230 360910005594 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 360910005595 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 360910005596 RNA binding surface [nucleotide binding]; other site 360910005597 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360910005598 active site 360910005599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910005600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910005601 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 360910005602 putative effector binding pocket; other site 360910005603 dimerization interface [polypeptide binding]; other site 360910005605 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 360910005606 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910005608 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 360910005609 Protein export membrane protein; Region: SecD_SecF; cl14618 360910005611 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360910005613 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360910005614 Predicted membrane protein [Function unknown]; Region: COG2261 360910005615 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 360910005616 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 360910005617 Cu(I) binding site [ion binding]; other site 360910005618 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 360910005619 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 360910005620 active site 360910005621 Zn binding site [ion binding]; other site 360910005622 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 360910005623 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 360910005624 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 360910005625 homodimer interface [polypeptide binding]; other site 360910005626 NADP binding site [chemical binding]; other site 360910005627 substrate binding site [chemical binding]; other site 360910005629 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 360910005630 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 360910005631 active site 360910005632 phosphorylation site [posttranslational modification] 360910005633 intermolecular recognition site; other site 360910005634 dimerization interface [polypeptide binding]; other site 360910005635 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 360910005636 DNA binding residues [nucleotide binding] 360910005637 dimerization interface [polypeptide binding]; other site 360910005639 PAS domain S-box; Region: sensory_box; TIGR00229 360910005640 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 360910005641 putative active site [active] 360910005642 heme pocket [chemical binding]; other site 360910005643 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 360910005644 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 360910005645 dimer interface [polypeptide binding]; other site 360910005646 phosphorylation site [posttranslational modification] 360910005647 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 360910005648 ATP binding site [chemical binding]; other site 360910005649 Mg2+ binding site [ion binding]; other site 360910005650 G-X-G motif; other site 360910005651 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 360910005652 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 360910005653 dimer interface [polypeptide binding]; other site 360910005654 TPP-binding site [chemical binding]; other site 360910005655 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 360910005656 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 360910005657 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 360910005658 E3 interaction surface; other site 360910005659 lipoyl attachment site [posttranslational modification]; other site 360910005660 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 360910005661 E3 interaction surface; other site 360910005662 lipoyl attachment site [posttranslational modification]; other site 360910005663 e3 binding domain; Region: E3_binding; pfam02817 360910005664 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 360910005667 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 360910005668 E3 interaction surface; other site 360910005669 lipoyl attachment site [posttranslational modification]; other site 360910005670 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 360910005671 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360910005672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910005673 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360910005676 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 360910005677 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360910005678 S-adenosylmethionine binding site [chemical binding]; other site 360910005679 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360910005680 flagellin; Validated; Region: PRK06819 360910005681 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360910005682 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360910005684 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 360910005685 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360910005686 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 360910005687 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910005688 DNA binding residues [nucleotide binding] 360910005690 transcriptional activator FlhD; Provisional; Region: PRK02909 360910005691 transcriptional activator FlhC; Provisional; Region: PRK12722 360910005692 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 360910005693 flagellar motor protein MotA; Validated; Region: PRK09110 360910005695 flagellar motor protein MotB; Validated; Region: motB; PRK09041 360910005696 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 360910005697 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360910005698 ligand binding site [chemical binding]; other site 360910005699 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360910005700 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 360910005701 active site 360910005702 phosphorylation site [posttranslational modification] 360910005703 intermolecular recognition site; other site 360910005704 dimerization interface [polypeptide binding]; other site 360910005705 chemotaxis protein CheA; Provisional; Region: PRK10547 360910005706 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 360910005707 putative binding surface; other site 360910005708 active site 360910005709 CheY binding; Region: CheY-binding; pfam09078 360910005710 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 360910005711 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 360910005712 ATP binding site [chemical binding]; other site 360910005713 Mg2+ binding site [ion binding]; other site 360910005714 G-X-G motif; other site 360910005715 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 360910005717 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 360910005718 putative CheA interaction surface; other site 360910005719 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 360910005720 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360910005721 ligand binding site [chemical binding]; other site 360910005722 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910005723 dimerization interface [polypeptide binding]; other site 360910005724 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910005725 dimer interface [polypeptide binding]; other site 360910005726 putative CheW interface [polypeptide binding]; other site 360910005727 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 360910005728 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 360910005729 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 360910005730 S-adenosylmethionine binding site [chemical binding]; other site 360910005731 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 360910005732 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 360910005733 active site 360910005734 phosphorylation site [posttranslational modification] 360910005735 intermolecular recognition site; other site 360910005736 dimerization interface [polypeptide binding]; other site 360910005737 CheB methylesterase; Region: CheB_methylest; pfam01339 360910005738 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 360910005739 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 360910005740 active site 360910005741 phosphorylation site [posttranslational modification] 360910005742 intermolecular recognition site; other site 360910005743 dimerization interface [polypeptide binding]; other site 360910005744 chemotaxis regulator CheZ; Provisional; Region: PRK11166 360910005745 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 360910005746 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 360910005747 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 360910005748 FHIPEP family; Region: FHIPEP; pfam00771 360910005750 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 360910005751 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 360910005753 FlgN protein; Region: FlgN; pfam05130 360910005754 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 360910005755 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 360910005756 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 360910005757 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 360910005758 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 360910005760 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 360910005761 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360910005762 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360910005764 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK12633 360910005765 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 360910005766 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 360910005767 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 360910005768 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360910005769 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 360910005770 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360910005771 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 360910005772 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360910005773 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 360910005775 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 360910005776 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360910005777 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360910005778 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12700 360910005779 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 360910005781 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 360910005782 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 360910005783 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12713 360910005784 Rod binding protein; Region: Rod-binding; cl01626 360910005785 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 360910005786 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 360910005787 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360910005788 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 360910005789 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360910005790 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 360910005791 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910005792 dimerization interface [polypeptide binding]; other site 360910005793 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910005794 dimer interface [polypeptide binding]; other site 360910005795 putative CheW interface [polypeptide binding]; other site 360910005796 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 360910005797 dimer interface [polypeptide binding]; other site 360910005798 ligand binding site [chemical binding]; other site 360910005799 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910005800 dimerization interface [polypeptide binding]; other site 360910005801 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910005802 dimer interface [polypeptide binding]; other site 360910005803 putative CheW interface [polypeptide binding]; other site 360910005805 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 360910005806 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 360910005807 dimer interface [polypeptide binding]; other site 360910005808 ligand binding site [chemical binding]; other site 360910005809 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910005810 dimerization interface [polypeptide binding]; other site 360910005811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910005812 dimer interface [polypeptide binding]; other site 360910005813 putative CheW interface [polypeptide binding]; other site 360910005814 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 360910005815 PAS fold; Region: PAS_3; pfam08447 360910005816 putative active site [active] 360910005817 heme pocket [chemical binding]; other site 360910005818 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910005819 dimerization interface [polypeptide binding]; other site 360910005820 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360910005821 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910005822 dimer interface [polypeptide binding]; other site 360910005823 putative CheW interface [polypeptide binding]; other site 360910005824 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 360910005825 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 360910005826 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 360910005829 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 360910005830 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 360910005831 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 360910005832 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 360910005833 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 360910005834 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 360910005835 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 360910005836 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 360910005837 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 360910005838 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 360910005839 Walker A motif/ATP binding site; other site 360910005840 Walker B motif; other site 360910005843 flagellar assembly protein H; Validated; Region: fliH; PRK05687 360910005844 Flagellar assembly protein FliH; Region: FliH; pfam02108 360910005845 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 360910005846 FliG C-terminal domain; Region: FliG_C; pfam01706 360910005847 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 360910005848 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 360910005849 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 360910005850 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 360910005851 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 360910005852 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360910005853 Flagellar protein FliT; Region: FliT; pfam05400 360910005854 Flagellar protein FliS; Region: FliS; cl00654 360910005855 flagellar capping protein; Reviewed; Region: fliD; PRK08032 360910005856 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 360910005857 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 360910005858 FlaG protein; Region: FlaG; pfam03646 360910005859 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 360910005860 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360910005861 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360910005862 Sporulation related domain; Region: SPOR; pfam05036 360910005863 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 360910005864 Colicin V production protein; Region: Colicin_V; pfam02674 360910005865 amidophosphoribosyltransferase; Provisional; Region: PRK09246 360910005866 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 360910005867 active site 360910005868 tetramer interface [polypeptide binding]; other site 360910005869 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360910005870 active site 360910005873 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 360910005874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 360910005875 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 360910005876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910005877 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 360910005878 dimerization interface [polypeptide binding]; other site 360910005880 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 360910005881 PII uridylyl-transferase; Provisional; Region: PRK03059 360910005882 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 360910005883 metal binding triad; other site 360910005884 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 360910005885 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360910005886 Zn2+ binding site [ion binding]; other site 360910005887 Mg2+ binding site [ion binding]; other site 360910005888 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 360910005889 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 360910005890 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 360910005891 active site 360910005893 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 360910005894 rRNA interaction site [nucleotide binding]; other site 360910005895 S8 interaction site; other site 360910005896 putative laminin-1 binding site; other site 360910005898 elongation factor Ts; Provisional; Region: tsf; PRK09377 360910005899 UBA/TS-N domain; Region: UBA; pfam00627 360910005900 Elongation factor TS; Region: EF_TS; pfam00889 360910005901 Elongation factor TS; Region: EF_TS; pfam00889 360910005903 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 360910005904 putative nucleotide binding site [chemical binding]; other site 360910005905 uridine monophosphate binding site [chemical binding]; other site 360910005906 homohexameric interface [polypeptide binding]; other site 360910005907 ribosome recycling factor; Reviewed; Region: frr; PRK00083 360910005908 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 360910005909 hinge region; other site 360910005910 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 360910005911 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 360910005912 catalytic residue [active] 360910005913 putative FPP diphosphate binding site; other site 360910005914 putative FPP binding hydrophobic cleft; other site 360910005915 dimer interface [polypeptide binding]; other site 360910005916 putative IPP diphosphate binding site; other site 360910005918 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 360910005919 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 360910005922 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 360910005923 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 360910005924 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 360910005925 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 360910005926 zinc metallopeptidase RseP; Provisional; Region: PRK10779 360910005927 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 360910005928 active site 360910005929 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 360910005930 protein binding site [polypeptide binding]; other site 360910005931 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 360910005932 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 360910005933 putative substrate binding region [chemical binding]; other site 360910005935 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 360910005936 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360910005937 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360910005938 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360910005939 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360910005940 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360910005941 Surface antigen; Region: Bac_surface_Ag; pfam01103 360910005943 periplasmic chaperone; Provisional; Region: PRK10780 360910005944 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 360910005945 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 360910005946 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 360910005947 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 360910005948 trimer interface [polypeptide binding]; other site 360910005949 active site 360910005950 UDP-GlcNAc binding site [chemical binding]; other site 360910005951 lipid binding site [chemical binding]; lipid-binding site 360910005954 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 360910005955 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 360910005956 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 360910005957 active site 360910005958 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 360910005959 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 360910005960 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 360910005961 RNA/DNA hybrid binding site [nucleotide binding]; other site 360910005962 active site 360910005963 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 360910005964 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360910005965 PEP synthetase regulatory protein; Provisional; Region: PRK05339 360910005967 phosphoenolpyruvate synthase; Validated; Region: PRK06464 360910005968 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 360910005969 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 360910005970 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 360910005973 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 360910005974 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 360910005975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910005976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910005977 metal binding site [ion binding]; metal-binding site 360910005978 active site 360910005979 I-site; other site 360910005980 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 360910005981 SmpB-tmRNA interface; other site 360910005983 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 360910005984 putative coenzyme Q binding site [chemical binding]; other site 360910005985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 360910005986 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 360910005987 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360910005988 active site 360910005991 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 360910005992 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 360910005993 substrate binding site [chemical binding]; other site 360910005994 oxyanion hole (OAH) forming residues; other site 360910005995 trimer interface [polypeptide binding]; other site 360910005996 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 360910005997 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 360910005998 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 360910006000 CCC1-related family of proteins; Region: CCC1_like; cl00278 360910006001 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 360910006002 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 360910006003 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 360910006004 YceG-like family; Region: YceG; pfam02618 360910006005 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 360910006006 dimerization interface [polypeptide binding]; other site 360910006007 thymidylate kinase; Validated; Region: tmk; PRK00698 360910006008 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 360910006009 TMP-binding site; other site 360910006010 ATP-binding site [chemical binding]; other site 360910006012 DNA polymerase III subunit delta'; Validated; Region: PRK06964 360910006013 DNA polymerase III subunit delta'; Validated; Region: PRK08485 360910006014 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 360910006015 active site 360910006017 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360910006018 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 360910006019 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360910006020 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 360910006021 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 360910006022 active site 360910006023 phosphorylation site [posttranslational modification] 360910006024 intermolecular recognition site; other site 360910006025 dimerization interface [polypeptide binding]; other site 360910006026 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 360910006027 DNA binding residues [nucleotide binding] 360910006028 dimerization interface [polypeptide binding]; other site 360910006030 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 360910006031 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 360910006032 dimer interface [polypeptide binding]; other site 360910006033 active site 360910006034 Fimbrial protein; Region: Fimbrial; pfam00419 360910006035 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 360910006036 PapC N-terminal domain; Region: PapC_N; pfam13954 360910006037 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 360910006038 PapC C-terminal domain; Region: PapC_C; pfam13953 360910006040 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 360910006041 fimbrial assembly chaperone StbE; Provisional; Region: PRK15246 360910006042 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910006043 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910006044 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 360910006045 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910006046 phosphorylation site [posttranslational modification] 360910006047 dimer interface [polypeptide binding]; other site 360910006048 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 360910006049 ATP binding site [chemical binding]; other site 360910006050 Mg2+ binding site [ion binding]; other site 360910006051 G-X-G motif; other site 360910006052 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 360910006053 Response regulator receiver domain; Region: Response_reg; pfam00072 360910006054 active site 360910006055 phosphorylation site [posttranslational modification] 360910006056 intermolecular recognition site; other site 360910006057 dimerization interface [polypeptide binding]; other site 360910006058 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 360910006059 putative binding surface; other site 360910006060 active site 360910006061 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 360910006062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910006063 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 360910006064 dimerization interface [polypeptide binding]; other site 360910006066 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 360910006067 Cupin domain; Region: Cupin_2; pfam07883 360910006069 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 360910006070 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360910006071 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 360910006072 maleylacetoacetate isomerase; Region: maiA; TIGR01262 360910006073 C-terminal domain interface [polypeptide binding]; other site 360910006074 GSH binding site (G-site) [chemical binding]; other site 360910006075 putative dimer interface [polypeptide binding]; other site 360910006076 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 360910006077 dimer interface [polypeptide binding]; other site 360910006078 N-terminal domain interface [polypeptide binding]; other site 360910006079 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 360910006080 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910006081 salicylate hydroxylase; Provisional; Region: PRK08163 360910006082 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360910006083 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 360910006084 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 360910006085 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910006086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910006087 metal binding site [ion binding]; metal-binding site 360910006088 active site 360910006089 I-site; other site 360910006090 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 360910006091 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 360910006092 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 360910006093 active site 360910006094 DNA binding site [nucleotide binding] 360910006095 Int/Topo IB signature motif; other site 360910006096 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 360910006098 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910006099 Coenzyme A binding pocket [chemical binding]; other site 360910006100 Domain of unknown function (DUF1805); Region: DUF1805; pfam08827 360910006101 SlyX; Region: SlyX; pfam04102 360910006102 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360910006103 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 360910006104 putative active site [active] 360910006105 catalytic triad [active] 360910006106 putative dimer interface [polypeptide binding]; other site 360910006108 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360910006109 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910006110 DNA-binding site [nucleotide binding]; DNA binding site 360910006111 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 360910006112 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 360910006113 DNA-binding site [nucleotide binding]; DNA binding site 360910006114 FCD domain; Region: FCD; pfam07729 360910006115 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 360910006116 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 360910006117 catalytic triad [active] 360910006119 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910006120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910006121 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 360910006122 dimerization interface [polypeptide binding]; other site 360910006124 putative transporter; Provisional; Region: PRK10504 360910006125 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 360910006126 putative substrate translocation pore; other site 360910006127 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 360910006128 Phosphoesterase family; Region: Phosphoesterase; pfam04185 360910006129 Domain of unknown function (DUF756); Region: DUF756; pfam05506 360910006130 Domain of unknown function (DUF756); Region: DUF756; pfam05506 360910006131 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 360910006134 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360910006135 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360910006136 Cytochrome c; Region: Cytochrom_C; pfam00034 360910006140 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360910006141 Cytochrome c; Region: Cytochrom_C; pfam00034 360910006144 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 360910006145 MgtC family; Region: MgtC; pfam02308 360910006146 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 360910006147 putative active site [active] 360910006148 putative catalytic site [active] 360910006149 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 360910006150 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360910006152 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 360910006153 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360910006154 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910006155 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 360910006156 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 360910006157 Walker A/P-loop; other site 360910006158 ATP binding site [chemical binding]; other site 360910006159 Q-loop/lid; other site 360910006160 ABC transporter signature motif; other site 360910006161 Walker B; other site 360910006162 D-loop; other site 360910006163 H-loop/switch region; other site 360910006164 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 360910006165 Walker A/P-loop; other site 360910006166 ATP binding site [chemical binding]; other site 360910006167 Q-loop/lid; other site 360910006168 ABC transporter signature motif; other site 360910006169 Walker B; other site 360910006170 D-loop; other site 360910006171 H-loop/switch region; other site 360910006172 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 360910006173 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 360910006174 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 360910006178 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 360910006179 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 360910006180 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 360910006182 DoxX; Region: DoxX; pfam07681 360910006183 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 360910006184 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 360910006185 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360910006186 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360910006187 Domain of unknown function (DUF336); Region: DUF336; pfam03928 360910006189 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 360910006190 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360910006191 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 360910006192 Amidase; Region: Amidase; cl11426 360910006195 metabolite-proton symporter; Region: 2A0106; TIGR00883 360910006196 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 360910006197 putative substrate translocation pore; other site 360910006200 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910006201 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 360910006202 AsnC family; Region: AsnC_trans_reg; pfam01037 360910006203 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 360910006204 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910006205 AsnC family; Region: AsnC_trans_reg; pfam01037 360910006206 AAA ATPase domain; Region: AAA_16; pfam13191 360910006207 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 360910006208 G1 box; other site 360910006209 GTP/Mg2+ binding site [chemical binding]; other site 360910006210 G2 box; other site 360910006211 Switch I region; other site 360910006212 G3 box; other site 360910006213 Switch II region; other site 360910006214 G4 box; other site 360910006215 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 360910006217 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 360910006218 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 360910006219 ArsC family; Region: ArsC; pfam03960 360910006220 catalytic residues [active] 360910006221 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 360910006222 CoA-transferase family III; Region: CoA_transf_3; pfam02515 360910006223 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 360910006224 DNA photolyase; Region: DNA_photolyase; pfam00875 360910006225 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 360910006226 Tetratricopeptide repeat; Region: TPR_16; pfam13432 360910006227 binding surface 360910006228 TPR motif; other site 360910006229 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 360910006230 catalytic residues [active] 360910006231 dimer interface [polypeptide binding]; other site 360910006233 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 360910006234 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 360910006235 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 360910006237 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 360910006238 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 360910006239 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 360910006240 NAD(P) binding site [chemical binding]; other site 360910006242 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 360910006243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910006244 DNA-binding site [nucleotide binding]; DNA binding site 360910006245 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 360910006246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910006247 homodimer interface [polypeptide binding]; other site 360910006248 catalytic residue [active] 360910006250 metabolite-proton symporter; Region: 2A0106; TIGR00883 360910006251 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 360910006252 putative substrate translocation pore; other site 360910006253 putative inner membrane protein; Provisional; Region: PRK11099 360910006254 putative inner membrane protein; Provisional; Region: PRK11099 360910006255 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 360910006256 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 360910006257 active site residue [active] 360910006258 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 360910006259 active site residue [active] 360910006261 RNA polymerase sigma factor; Provisional; Region: PRK12528 360910006262 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910006263 DNA binding residues [nucleotide binding] 360910006264 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 360910006265 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 360910006266 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 360910006267 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 360910006268 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 360910006269 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 360910006270 active site 360910006271 non-prolyl cis peptide bond; other site 360910006273 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 360910006274 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 360910006275 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910006276 Walker A/P-loop; other site 360910006277 ATP binding site [chemical binding]; other site 360910006278 Q-loop/lid; other site 360910006279 ABC transporter signature motif; other site 360910006280 Walker B; other site 360910006281 D-loop; other site 360910006282 H-loop/switch region; other site 360910006283 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910006284 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910006285 Walker A/P-loop; other site 360910006286 ATP binding site [chemical binding]; other site 360910006287 Q-loop/lid; other site 360910006288 ABC transporter signature motif; other site 360910006289 Walker B; other site 360910006290 D-loop; other site 360910006291 H-loop/switch region; other site 360910006292 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910006297 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 360910006298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006299 dimer interface [polypeptide binding]; other site 360910006300 conserved gate region; other site 360910006301 putative PBP binding loops; other site 360910006302 ABC-ATPase subunit interface; other site 360910006303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 360910006304 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910006305 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006306 dimer interface [polypeptide binding]; other site 360910006307 conserved gate region; other site 360910006308 putative PBP binding loops; other site 360910006309 ABC-ATPase subunit interface; other site 360910006310 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 360910006311 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360910006312 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 360910006313 Predicted transcriptional regulators [Transcription]; Region: COG1695 360910006314 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 360910006316 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 360910006317 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 360910006318 outer membrane receptor FepA; Provisional; Region: PRK13528 360910006319 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 360910006320 N-terminal plug; other site 360910006321 ligand-binding site [chemical binding]; other site 360910006322 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360910006323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910006327 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 360910006328 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 360910006329 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 360910006330 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 360910006331 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 360910006332 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 360910006333 Autotransporter beta-domain; Region: Autotransporter; pfam03797 360910006334 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360910006335 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360910006336 Walker A/P-loop; other site 360910006337 ATP binding site [chemical binding]; other site 360910006338 Q-loop/lid; other site 360910006339 ABC transporter signature motif; other site 360910006340 Walker B; other site 360910006341 D-loop; other site 360910006342 H-loop/switch region; other site 360910006345 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360910006346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006347 dimer interface [polypeptide binding]; other site 360910006348 conserved gate region; other site 360910006349 putative PBP binding loops; other site 360910006350 ABC-ATPase subunit interface; other site 360910006352 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360910006353 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910006354 substrate binding pocket [chemical binding]; other site 360910006355 membrane-bound complex binding site; other site 360910006356 hinge residues; other site 360910006357 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 360910006358 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 360910006359 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 360910006362 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 360910006363 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 360910006364 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 360910006365 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 360910006366 Transporter associated domain; Region: CorC_HlyC; smart01091 360910006367 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360910006368 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 360910006369 active site 360910006370 phosphorylation site [posttranslational modification] 360910006371 intermolecular recognition site; other site 360910006372 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 360910006373 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 360910006374 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 360910006375 active site 360910006376 phosphorylation site [posttranslational modification] 360910006377 intermolecular recognition site; other site 360910006378 dimerization interface [polypeptide binding]; other site 360910006379 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 360910006380 DNA binding residues [nucleotide binding] 360910006381 dimerization interface [polypeptide binding]; other site 360910006383 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 360910006384 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910006385 substrate binding pocket [chemical binding]; other site 360910006386 membrane-bound complex binding site; other site 360910006387 hinge residues; other site 360910006388 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910006389 substrate binding pocket [chemical binding]; other site 360910006390 membrane-bound complex binding site; other site 360910006391 hinge residues; other site 360910006392 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 360910006393 putative active site [active] 360910006394 heme pocket [chemical binding]; other site 360910006395 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910006396 dimer interface [polypeptide binding]; other site 360910006397 phosphorylation site [posttranslational modification] 360910006398 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 360910006399 ATP binding site [chemical binding]; other site 360910006400 Mg2+ binding site [ion binding]; other site 360910006401 G-X-G motif; other site 360910006402 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 360910006403 active site 360910006404 phosphorylation site [posttranslational modification] 360910006405 intermolecular recognition site; other site 360910006406 dimerization interface [polypeptide binding]; other site 360910006407 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 360910006408 putative binding surface; other site 360910006409 active site 360910006411 Site-specific recombinase; Region: SpecificRecomb; pfam10136 360910006412 Transcriptional regulators [Transcription]; Region: FadR; COG2186 360910006413 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910006414 DNA-binding site [nucleotide binding]; DNA binding site 360910006415 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 360910006417 thiamine pyrophosphate protein; Validated; Region: PRK08199 360910006418 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360910006419 PYR/PP interface [polypeptide binding]; other site 360910006420 dimer interface [polypeptide binding]; other site 360910006421 TPP binding site [chemical binding]; other site 360910006422 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360910006423 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 360910006424 TPP-binding site [chemical binding]; other site 360910006425 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 360910006426 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 360910006427 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 360910006428 phosphate binding site [ion binding]; other site 360910006430 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360910006431 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360910006432 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360910006433 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 360910006434 RNA binding surface [nucleotide binding]; other site 360910006435 Protein of unknown function (DUF423); Region: DUF423; pfam04241 360910006436 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360910006437 EamA-like transporter family; Region: EamA; pfam00892 360910006439 glutathionine S-transferase; Provisional; Region: PRK10542 360910006440 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 360910006441 C-terminal domain interface [polypeptide binding]; other site 360910006442 GSH binding site (G-site) [chemical binding]; other site 360910006443 dimer interface [polypeptide binding]; other site 360910006444 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 360910006445 dimer interface [polypeptide binding]; other site 360910006446 N-terminal domain interface [polypeptide binding]; other site 360910006447 substrate binding pocket (H-site) [chemical binding]; other site 360910006448 aspartate racemase; Region: asp_race; TIGR00035 360910006449 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360910006451 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910006452 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910006453 Walker A/P-loop; other site 360910006454 ATP binding site [chemical binding]; other site 360910006455 Q-loop/lid; other site 360910006456 ABC transporter signature motif; other site 360910006457 Walker B; other site 360910006458 D-loop; other site 360910006459 H-loop/switch region; other site 360910006462 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 360910006463 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910006464 Walker A/P-loop; other site 360910006465 ATP binding site [chemical binding]; other site 360910006466 Q-loop/lid; other site 360910006467 ABC transporter signature motif; other site 360910006468 Walker B; other site 360910006469 D-loop; other site 360910006470 H-loop/switch region; other site 360910006472 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 360910006473 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 360910006474 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 360910006475 TM-ABC transporter signature motif; other site 360910006476 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910006477 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 360910006478 TM-ABC transporter signature motif; other site 360910006479 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360910006480 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 360910006481 dimerization interface [polypeptide binding]; other site 360910006482 ligand binding site [chemical binding]; other site 360910006483 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 360910006484 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 360910006485 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 360910006487 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360910006488 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 360910006491 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 360910006492 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006493 dimer interface [polypeptide binding]; other site 360910006494 conserved gate region; other site 360910006495 ABC-ATPase subunit interface; other site 360910006497 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 360910006498 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006499 dimer interface [polypeptide binding]; other site 360910006500 conserved gate region; other site 360910006501 putative PBP binding loops; other site 360910006502 ABC-ATPase subunit interface; other site 360910006504 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 360910006505 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 360910006506 Walker A/P-loop; other site 360910006507 ATP binding site [chemical binding]; other site 360910006508 Q-loop/lid; other site 360910006509 ABC transporter signature motif; other site 360910006510 Walker B; other site 360910006511 D-loop; other site 360910006512 H-loop/switch region; other site 360910006513 TOBE domain; Region: TOBE_2; pfam08402 360910006516 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360910006517 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 360910006518 dimerization interface [polypeptide binding]; other site 360910006519 ligand binding site [chemical binding]; other site 360910006520 Serine hydrolase; Region: Ser_hydrolase; pfam06821 360910006521 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 360910006522 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 360910006523 dimerization interface [polypeptide binding]; other site 360910006524 DPS ferroxidase diiron center [ion binding]; other site 360910006525 ion pore; other site 360910006527 choline dehydrogenase; Validated; Region: PRK02106 360910006528 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 360910006531 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360910006532 Nocardioides 2-carboxybenzaldehyde dehydrogenase, PhdK-like; Region: ALDH_PhdK-like; cd07107 360910006533 NAD(P) binding site [chemical binding]; other site 360910006534 catalytic residues [active] 360910006535 catalytic residues [active] 360910006537 NMT1/THI5 like; Region: NMT1; pfam09084 360910006538 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 360910006539 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360910006540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006541 dimer interface [polypeptide binding]; other site 360910006542 conserved gate region; other site 360910006543 putative PBP binding loops; other site 360910006544 ABC-ATPase subunit interface; other site 360910006545 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360910006546 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 360910006547 Walker A/P-loop; other site 360910006548 ATP binding site [chemical binding]; other site 360910006549 Q-loop/lid; other site 360910006550 ABC transporter signature motif; other site 360910006551 Walker B; other site 360910006552 D-loop; other site 360910006553 H-loop/switch region; other site 360910006556 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 360910006557 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360910006558 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 360910006559 N-terminal domain interface [polypeptide binding]; other site 360910006560 dimer interface [polypeptide binding]; other site 360910006561 substrate binding pocket (H-site) [chemical binding]; other site 360910006562 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 360910006563 homotrimer interaction site [polypeptide binding]; other site 360910006564 putative active site [active] 360910006565 Uncharacterized conserved protein [Function unknown]; Region: COG5276 360910006566 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 360910006567 Cupin domain; Region: Cupin_2; pfam07883 360910006568 Cupin domain; Region: Cupin_2; pfam07883 360910006569 Transcriptional regulators [Transcription]; Region: FadR; COG2186 360910006570 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 360910006571 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 360910006572 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 360910006573 tetrameric interface [polypeptide binding]; other site 360910006574 NAD binding site [chemical binding]; other site 360910006575 catalytic residues [active] 360910006577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910006578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910006579 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 360910006580 putative effector binding pocket; other site 360910006581 dimerization interface [polypeptide binding]; other site 360910006582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910006583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910006584 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 360910006585 dimerization interface [polypeptide binding]; other site 360910006587 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 360910006588 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 360910006589 generic binding surface II; other site 360910006590 ssDNA binding site; other site 360910006591 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 360910006592 ATP binding site [chemical binding]; other site 360910006593 putative Mg++ binding site [ion binding]; other site 360910006594 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 360910006595 nucleotide binding region [chemical binding]; other site 360910006596 ATP-binding site [chemical binding]; other site 360910006598 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 360910006599 homotrimer interaction site [polypeptide binding]; other site 360910006600 putative active site [active] 360910006601 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 360910006602 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 360910006603 FAD binding pocket [chemical binding]; other site 360910006604 FAD binding motif [chemical binding]; other site 360910006605 phosphate binding motif [ion binding]; other site 360910006606 beta-alpha-beta structure motif; other site 360910006607 NAD binding pocket [chemical binding]; other site 360910006608 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 360910006609 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 360910006610 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 360910006611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006612 dimer interface [polypeptide binding]; other site 360910006613 conserved gate region; other site 360910006614 putative PBP binding loops; other site 360910006615 ABC-ATPase subunit interface; other site 360910006617 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 360910006618 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 360910006619 Walker A/P-loop; other site 360910006620 ATP binding site [chemical binding]; other site 360910006621 Q-loop/lid; other site 360910006622 ABC transporter signature motif; other site 360910006623 Walker B; other site 360910006624 D-loop; other site 360910006625 H-loop/switch region; other site 360910006628 Pirin-related protein [General function prediction only]; Region: COG1741 360910006629 Pirin; Region: Pirin; pfam02678 360910006630 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 360910006631 Pirin-related protein [General function prediction only]; Region: COG1741 360910006632 Pirin; Region: Pirin; pfam02678 360910006633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910006634 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 360910006635 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 360910006636 dimerization interface [polypeptide binding]; other site 360910006637 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 360910006638 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 360910006639 active site 360910006640 phosphorylation site [posttranslational modification] 360910006641 intermolecular recognition site; other site 360910006642 dimerization interface [polypeptide binding]; other site 360910006643 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910006644 Walker A motif; other site 360910006645 ATP binding site [chemical binding]; other site 360910006646 Walker B motif; other site 360910006647 arginine finger; other site 360910006648 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 360910006652 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 360910006653 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 360910006654 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910006655 dimer interface [polypeptide binding]; other site 360910006656 phosphorylation site [posttranslational modification] 360910006657 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 360910006658 ATP binding site [chemical binding]; other site 360910006659 Mg2+ binding site [ion binding]; other site 360910006660 G-X-G motif; other site 360910006661 glutamine synthetase; Provisional; Region: glnA; PRK09469 360910006662 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 360910006663 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 360910006667 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 360910006668 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 360910006669 FeS/SAM binding site; other site 360910006670 HemN C-terminal domain; Region: HemN_C; pfam06969 360910006671 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 360910006672 active site 360910006673 dimerization interface [polypeptide binding]; other site 360910006674 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 360910006675 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 and...; Region: CBS_pair_GGDEF_assoc; cd04598 360910006676 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910006677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910006678 metal binding site [ion binding]; metal-binding site 360910006679 active site 360910006680 I-site; other site 360910006681 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910006682 dimerization interface [polypeptide binding]; other site 360910006683 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360910006684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360910006685 dimer interface [polypeptide binding]; other site 360910006686 putative CheW interface [polypeptide binding]; other site 360910006687 ribonuclease PH; Reviewed; Region: rph; PRK00173 360910006688 Ribonuclease PH; Region: RNase_PH_bact; cd11362 360910006689 hexamer interface [polypeptide binding]; other site 360910006690 active site 360910006691 hypothetical protein; Provisional; Region: PRK11820 360910006692 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 360910006693 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 360910006694 putative hydroxymethylglutaryl-coa lyase;Truncated at N-terminus relative to orthologues 360910006695 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 360910006696 CoA-transferase family III; Region: CoA_transf_3; pfam02515 360910006697 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 360910006698 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910006699 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 360910006700 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 360910006701 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 360910006702 nucleotide binding region [chemical binding]; other site 360910006703 ATP-binding site [chemical binding]; other site 360910006705 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 360910006706 active site 360910006707 putative substrate binding region [chemical binding]; other site 360910006708 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360910006709 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910006711 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 360910006718 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 360910006721 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 360910006724 SapC; Region: SapC; pfam07277 360910006725 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 360910006726 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 360910006727 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 360910006728 ATP binding site [chemical binding]; other site 360910006729 Mg2+ binding site [ion binding]; other site 360910006730 G-X-G motif; other site 360910006731 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 360910006732 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 360910006733 active site 360910006734 phosphorylation site [posttranslational modification] 360910006735 intermolecular recognition site; other site 360910006736 dimerization interface [polypeptide binding]; other site 360910006737 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 360910006738 DNA binding residues [nucleotide binding] 360910006739 dimerization interface [polypeptide binding]; other site 360910006741 Putative ParB-like nuclease; Region: ParBc_2; cl17538 360910006743 AMP nucleosidase; Provisional; Region: PRK08292 360910006744 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 360910006745 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 360910006746 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 360910006747 NlpC/P60 family; Region: NLPC_P60; pfam00877 360910006748 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 360910006749 classical (c) SDRs; Region: SDR_c; cd05233 360910006750 NAD(P) binding site [chemical binding]; other site 360910006751 active site 360910006753 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 360910006754 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 360910006755 catalytic site [active] 360910006756 G-X2-G-X-G-K; other site 360910006759 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 360910006760 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 360910006761 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360910006762 Zn2+ binding site [ion binding]; other site 360910006763 Mg2+ binding site [ion binding]; other site 360910006764 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 360910006765 synthetase active site [active] 360910006766 NTP binding site [chemical binding]; other site 360910006767 metal binding site [ion binding]; metal-binding site 360910006768 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 360910006769 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 360910006770 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 360910006771 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360910006772 Walker A/P-loop; other site 360910006773 ATP binding site [chemical binding]; other site 360910006774 Q-loop/lid; other site 360910006775 ABC transporter signature motif; other site 360910006776 Walker B; other site 360910006777 D-loop; other site 360910006778 H-loop/switch region; other site 360910006781 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006782 dimer interface [polypeptide binding]; other site 360910006783 conserved gate region; other site 360910006784 putative PBP binding loops; other site 360910006785 ABC-ATPase subunit interface; other site 360910006786 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 360910006787 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910006788 substrate binding pocket [chemical binding]; other site 360910006789 membrane-bound complex binding site; other site 360910006790 hinge residues; other site 360910006793 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 360910006794 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 360910006795 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 360910006796 Fimbrial protein; Region: Fimbrial; cl01416 360910006797 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 360910006798 PapC N-terminal domain; Region: PapC_N; pfam13954 360910006799 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 360910006801 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 360910006802 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 360910006803 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 360910006807 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910006808 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360910006809 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360910006810 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360910006811 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360910006815 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 360910006816 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360910006817 Walker A/P-loop; other site 360910006818 ATP binding site [chemical binding]; other site 360910006819 Q-loop/lid; other site 360910006820 ABC transporter signature motif; other site 360910006821 Walker B; other site 360910006822 D-loop; other site 360910006823 H-loop/switch region; other site 360910006826 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 360910006827 active site 360910006828 catalytic triad [active] 360910006829 oxyanion hole [active] 360910006830 switch loop; other site 360910006831 SurA N-terminal domain; Region: SurA_N_3; cl07813 360910006832 periplasmic folding chaperone; Provisional; Region: PRK10788 360910006833 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 360910006835 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 360910006836 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 360910006837 putative active site [active] 360910006838 catalytic site [active] 360910006839 putative metal binding site [ion binding]; other site 360910006840 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 360910006842 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 360910006843 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360910006844 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910006845 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360910006846 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 360910006847 catalytic triad [active] 360910006848 dimer interface [polypeptide binding]; other site 360910006849 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360910006851 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 360910006852 metal-binding site [ion binding] 360910006854 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 360910006855 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 360910006856 DNA binding residues [nucleotide binding] 360910006857 dimer interface [polypeptide binding]; other site 360910006858 copper binding site [ion binding]; other site 360910006860 TRAM domain; Region: TRAM; cl01282 360910006861 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 360910006862 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 360910006863 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 360910006864 S-adenosylmethionine binding site [chemical binding]; other site 360910006865 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 360910006866 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 360910006867 active site 360910006868 catalytic site [active] 360910006869 substrate binding site [chemical binding]; other site 360910006870 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 360910006871 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360910006872 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360910006873 Peptidase family M23; Region: Peptidase_M23; pfam01551 360910006875 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 360910006876 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 360910006877 S-adenosylmethionine binding site [chemical binding]; other site 360910006879 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 360910006880 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 360910006881 UGMP family protein; Validated; Region: PRK09604 360910006882 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360910006883 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 360910006884 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 360910006885 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 360910006886 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 360910006887 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 360910006888 catalytic residues [active] 360910006890 Uncharacterized conserved protein [Function unknown]; Region: COG1739 360910006891 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 360910006893 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 360910006894 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910006895 substrate binding pocket [chemical binding]; other site 360910006896 membrane-bound complex binding site; other site 360910006897 hinge residues; other site 360910006898 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360910006899 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910006900 dimer interface [polypeptide binding]; other site 360910006901 conserved gate region; other site 360910006902 putative PBP binding loops; other site 360910006903 ABC-ATPase subunit interface; other site 360910006904 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 360910006905 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 360910006906 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360910006907 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 360910006908 Walker A/P-loop; other site 360910006909 ATP binding site [chemical binding]; other site 360910006910 Q-loop/lid; other site 360910006911 ABC transporter signature motif; other site 360910006912 Walker B; other site 360910006913 D-loop; other site 360910006914 H-loop/switch region; other site 360910006917 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 360910006918 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910006919 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910006920 ABC transporter; Region: ABC_tran_2; pfam12848 360910006921 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910006925 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 360910006926 dimer interface [polypeptide binding]; other site 360910006927 catalytic triad [active] 360910006928 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 360910006929 nucleoside/Zn binding site; other site 360910006930 dimer interface [polypeptide binding]; other site 360910006931 catalytic motif [active] 360910006933 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 360910006934 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 360910006936 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 360910006937 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 360910006938 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360910006939 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 360910006940 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 360910006941 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360910006942 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 360910006943 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 360910006944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910006945 AAA domain; Region: AAA_23; pfam13476 360910006946 Walker A/P-loop; other site 360910006947 ATP binding site [chemical binding]; other site 360910006949 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 360910006950 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 360910006951 active site 360910006952 metal binding site [ion binding]; metal-binding site 360910006953 DNA binding site [nucleotide binding] 360910006954 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 360910006955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910006956 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 360910006957 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 360910006958 putative DNA binding site [nucleotide binding]; other site 360910006959 putative Zn2+ binding site [ion binding]; other site 360910006960 AsnC family; Region: AsnC_trans_reg; pfam01037 360910006963 Protein of unknown function (DUF502); Region: DUF502; pfam04367 360910006964 transglutaminase; Provisional; Region: tgl; PRK03187 360910006965 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...; Region: EPT_RTPC-like; cl00288 360910006966 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 360910006967 putative active site [active] 360910006968 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 360910006969 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 360910006970 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 360910006972 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 360910006974 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 360910006975 putative deacylase active site [active] 360910006976 NRDE protein; Region: NRDE; cl01315 360910006977 Protein of unknown function (DUF2012); Region: DUF2012; pfam09430 360910006978 MAPEG family; Region: MAPEG; cl09190 360910006979 hypothetical protein; Provisional; Region: PRK09256 360910006981 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360910006982 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360910006983 putative active site [active] 360910006984 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 360910006985 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 360910006986 FeS/SAM binding site; other site 360910006987 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 360910006988 active site 360910006989 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910006990 MarR family; Region: MarR_2; cl17246 360910006991 Fusaric acid resistance protein family; Region: FUSC; pfam04632 360910006992 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 360910006993 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 360910006994 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 360910006995 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360910006996 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910006997 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 360910007000 putative hydrolase; Provisional; Region: PRK11460 360910007001 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 360910007002 Uncharacterized conserved protein [Function unknown]; Region: COG4544 360910007003 DNA Polymerase Y-family; Region: PolY_like; cd03468 360910007004 DNA binding site [nucleotide binding] 360910007006 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 360910007007 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 360910007008 putative active site [active] 360910007009 putative PHP Thumb interface [polypeptide binding]; other site 360910007010 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 360910007011 generic binding surface II; other site 360910007012 generic binding surface I; other site 360910007013 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 360910007014 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910007015 Transcriptional regulator; Region: Rrf2; cl17282 360910007016 Rrf2 family protein; Region: rrf2_super; TIGR00738 360910007017 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 360910007018 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 360910007019 heme-binding site [chemical binding]; other site 360910007020 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 360910007021 FAD binding pocket [chemical binding]; other site 360910007022 FAD binding motif [chemical binding]; other site 360910007023 phosphate binding motif [ion binding]; other site 360910007024 beta-alpha-beta structure motif; other site 360910007025 NAD binding pocket [chemical binding]; other site 360910007026 Heme binding pocket [chemical binding]; other site 360910007027 Yqey-like protein; Region: YqeY; pfam09424 360910007028 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 360910007029 active site 360910007030 DNA polymerase IV; Validated; Region: PRK02406 360910007031 DNA binding site [nucleotide binding] 360910007032 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 360910007033 CoenzymeA binding site [chemical binding]; other site 360910007034 subunit interaction site [polypeptide binding]; other site 360910007035 PHB binding site; other site 360910007037 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 360910007038 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 360910007039 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 360910007040 Transglycosylase; Region: Transgly; pfam00912 360910007041 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360910007042 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 360910007043 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360910007044 active site 360910007045 metal binding site [ion binding]; metal-binding site 360910007046 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360910007047 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 360910007048 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360910007049 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 360910007050 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 360910007051 iron-sulfur cluster [ion binding]; other site 360910007052 [2Fe-2S] cluster binding site [ion binding]; other site 360910007053 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 360910007054 dimerization interface [polypeptide binding]; other site 360910007055 putative active cleft [active] 360910007056 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 360910007057 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910007058 dimer interface [polypeptide binding]; other site 360910007059 phosphorylation site [posttranslational modification] 360910007060 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 360910007061 ATP binding site [chemical binding]; other site 360910007062 G-X-G motif; other site 360910007063 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 360910007064 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 360910007065 active site 360910007066 phosphorylation site [posttranslational modification] 360910007067 intermolecular recognition site; other site 360910007068 dimerization interface [polypeptide binding]; other site 360910007069 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910007070 DNA binding site [nucleotide binding] 360910007071 Domain of unknown function (DUF336); Region: DUF336; cl01249 360910007072 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 360910007073 active site 360910007074 homotetramer interface [polypeptide binding]; other site 360910007076 CsbD-like; Region: CsbD; pfam05532 360910007077 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 360910007079 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360910007080 EamA-like transporter family; Region: EamA; pfam00892 360910007081 EamA-like transporter family; Region: EamA; pfam00892 360910007083 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910007084 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 360910007085 putative DNA binding site [nucleotide binding]; other site 360910007086 putative Zn2+ binding site [ion binding]; other site 360910007087 AsnC family; Region: AsnC_trans_reg; pfam01037 360910007089 BCCT family transporter; Region: BCCT; cl00569 360910007091 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 360910007092 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 360910007093 active site 360910007094 substrate binding site [chemical binding]; other site 360910007095 Mg2+ binding site [ion binding]; other site 360910007096 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 360910007097 active site 360910007098 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 360910007099 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360910007100 DNA binding residues [nucleotide binding] 360910007101 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 360910007102 IHF - DNA interface [nucleotide binding]; other site 360910007103 IHF dimer interface [polypeptide binding]; other site 360910007105 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 360910007106 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 360910007107 putative tRNA-binding site [nucleotide binding]; other site 360910007108 B3/4 domain; Region: B3_4; pfam03483 360910007109 tRNA synthetase B5 domain; Region: B5; smart00874 360910007110 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 360910007111 dimer interface [polypeptide binding]; other site 360910007112 motif 1; other site 360910007113 motif 3; other site 360910007114 motif 2; other site 360910007115 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 360910007116 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 360910007117 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 360910007118 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 360910007119 dimer interface [polypeptide binding]; other site 360910007120 motif 1; other site 360910007121 active site 360910007122 motif 2; other site 360910007123 motif 3; other site 360910007126 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 360910007127 23S rRNA binding site [nucleotide binding]; other site 360910007128 L21 binding site [polypeptide binding]; other site 360910007129 L13 binding site [polypeptide binding]; other site 360910007131 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 360910007132 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 360910007133 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360910007134 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 360910007135 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 360910007137 Membrane fusogenic activity; Region: BMFP; pfam04380 360910007138 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 360910007139 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910007140 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 360910007141 Nitrogen regulatory protein P-II; Region: P-II; smart00938 360910007143 ammonium transporter; Provisional; Region: PRK10666 360910007145 SnoaL-like domain; Region: SnoaL_2; pfam12680 360910007146 short chain dehydrogenase; Provisional; Region: PRK06101 360910007147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910007148 NAD(P) binding site [chemical binding]; other site 360910007149 active site 360910007150 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 360910007152 MFS/sugar transport protein; Region: MFS_2; pfam13347 360910007153 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 360910007154 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 360910007155 S-adenosylmethionine binding site [chemical binding]; other site 360910007156 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 360910007157 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 360910007158 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360910007161 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 360910007162 TIGR01777 family protein; Region: yfcH 360910007163 putative NAD(P) binding site [chemical binding]; other site 360910007164 putative active site [active] 360910007165 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 360910007166 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 360910007167 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 360910007168 Glutamate binding site [chemical binding]; other site 360910007169 NAD binding site [chemical binding]; other site 360910007170 catalytic residues [active] 360910007172 Protein of unknown function (DUF330); Region: DUF330; pfam03886 360910007174 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 360910007175 mce related protein; Region: MCE; pfam02470 360910007176 mce related protein; Region: MCE; pfam02470 360910007177 mce related protein; Region: MCE; pfam02470 360910007180 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 360910007181 Paraquat-inducible protein A; Region: PqiA; pfam04403 360910007182 Paraquat-inducible protein A; Region: PqiA; pfam04403 360910007184 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 360910007185 Clp amino terminal domain; Region: Clp_N; pfam02861 360910007186 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910007187 Walker A motif; other site 360910007188 ATP binding site [chemical binding]; other site 360910007189 Walker B motif; other site 360910007190 arginine finger; other site 360910007191 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910007192 Walker A motif; other site 360910007193 ATP binding site [chemical binding]; other site 360910007194 Walker B motif; other site 360910007195 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360910007200 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 360910007201 Transglycosylase; Region: Transgly; pfam00912 360910007202 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 360910007203 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 360910007204 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 360910007205 MG2 domain; Region: A2M_N; pfam01835 360910007206 Alpha-2-macroglobulin family; Region: A2M; pfam00207 360910007207 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 360910007208 surface patch; other site 360910007209 thioester region; other site 360910007210 specificity defining residues; other site 360910007211 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 360910007212 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 360910007213 DNA-binding site [nucleotide binding]; DNA binding site 360910007214 RNA-binding motif; other site 360910007216 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 360910007217 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 360910007218 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 360910007219 dimer interface [polypeptide binding]; other site 360910007220 active site 360910007224 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 360910007225 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 360910007226 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 360910007228 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 360910007229 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 360910007230 generic binding surface II; other site 360910007231 generic binding surface I; other site 360910007232 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 360910007233 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360910007234 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 360910007235 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 360910007236 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 360910007237 Uncharacterized conserved protein [Function unknown]; Region: COG2835 360910007238 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 360910007239 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 360910007240 Ligand binding site; other site 360910007241 oligomer interface; other site 360910007242 adenylate kinase; Reviewed; Region: adk; PRK00279 360910007243 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 360910007244 AMP-binding site [chemical binding]; other site 360910007245 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 360910007247 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 360910007248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910007249 NAD(P) binding site [chemical binding]; other site 360910007250 active site 360910007252 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 360910007253 MviN-like protein; Region: MVIN; pfam03023 360910007255 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 360910007256 FecR protein; Region: FecR; pfam04773 360910007257 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 360910007258 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 360910007259 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 360910007260 putative ligand binding site [chemical binding]; other site 360910007261 NAD binding site [chemical binding]; other site 360910007262 catalytic site [active] 360910007264 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 360910007265 acetylornithine aminotransferase; Provisional; Region: PRK02627 360910007266 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 360910007267 inhibitor-cofactor binding pocket; inhibition site 360910007268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910007269 catalytic residue [active] 360910007271 ornithine carbamoyltransferase; Provisional; Region: PRK00779 360910007272 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360910007273 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360910007275 argininosuccinate synthase; Validated; Region: PRK05370 360910007276 argininosuccinate synthase; Provisional; Region: PRK13820 360910007279 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 360910007280 K+ potassium transporter; Region: K_trans; cl15781 360910007281 potassium uptake protein; Region: kup; TIGR00794 360910007282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360910007283 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910007284 dimer interface [polypeptide binding]; other site 360910007285 phosphorylation site [posttranslational modification] 360910007286 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 360910007287 ATP binding site [chemical binding]; other site 360910007288 G-X-G motif; other site 360910007289 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910007290 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 360910007291 active site 360910007292 phosphorylation site [posttranslational modification] 360910007293 intermolecular recognition site; other site 360910007294 dimerization interface [polypeptide binding]; other site 360910007295 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910007296 DNA binding site [nucleotide binding] 360910007297 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360910007298 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 360910007299 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 360910007300 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360910007301 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 360910007302 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 360910007303 IHF dimer interface [polypeptide binding]; other site 360910007304 IHF - DNA interface [nucleotide binding]; other site 360910007306 hypothetical protein; Provisional; Region: PRK05939 360910007307 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 360910007308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360910007309 catalytic residue [active] 360910007310 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 360910007311 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 360910007312 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360910007313 ribonuclease R; Region: RNase_R; TIGR02063 360910007314 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 360910007315 RNB domain; Region: RNB; pfam00773 360910007316 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 360910007317 RNA binding site [nucleotide binding]; other site 360910007319 DTW domain; Region: DTW; cl01221 360910007320 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 360910007321 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 360910007322 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910007323 Coenzyme A binding pocket [chemical binding]; other site 360910007324 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 360910007325 arsenical pump membrane protein; Provisional; Region: PRK15445 360910007326 transmembrane helices; other site 360910007327 Predicted transporter component [General function prediction only]; Region: COG2391 360910007328 Sulphur transport; Region: Sulf_transp; pfam04143 360910007329 Protein of unknown function, DUF606; Region: DUF606; pfam04657 360910007330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910007331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910007332 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 360910007333 putative substrate binding pocket [chemical binding]; other site 360910007334 putative dimerization interface [polypeptide binding]; other site 360910007337 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 360910007338 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 360910007339 active site 360910007340 FMN binding site [chemical binding]; other site 360910007341 substrate binding site [chemical binding]; other site 360910007342 3Fe-4S cluster binding site [ion binding]; other site 360910007343 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910007344 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910007345 metal binding site [ion binding]; metal-binding site 360910007346 active site 360910007347 I-site; other site 360910007349 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 360910007350 heme-binding site [chemical binding]; other site 360910007351 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910007352 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910007353 metal binding site [ion binding]; metal-binding site 360910007354 active site 360910007355 I-site; other site 360910007357 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 360910007358 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360910007359 Coenzyme A binding pocket [chemical binding]; other site 360910007360 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 360910007361 Isochorismatase family; Region: Isochorismatase; pfam00857 360910007362 catalytic triad [active] 360910007363 metal binding site [ion binding]; metal-binding site 360910007364 conserved cis-peptide bond; other site 360910007365 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 360910007366 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360910007367 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 360910007368 Cytochrome C' Region: Cytochrom_C_2; pfam01322 360910007370 adenylosuccinate lyase; Provisional; Region: PRK09285 360910007371 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 360910007372 tetramer interface [polypeptide binding]; other site 360910007373 active site 360910007375 putative glutathione S-transferase; Provisional; Region: PRK10357 360910007376 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 360910007377 putative C-terminal domain interface [polypeptide binding]; other site 360910007378 putative GSH binding site (G-site) [chemical binding]; other site 360910007379 putative dimer interface [polypeptide binding]; other site 360910007380 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 360910007381 dimer interface [polypeptide binding]; other site 360910007382 N-terminal domain interface [polypeptide binding]; other site 360910007383 putative substrate binding pocket (H-site) [chemical binding]; other site 360910007384 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360910007385 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 360910007386 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 360910007387 NAD(P) transhydrogenase subunit alpha part 1 (pseudogene);Similar to the N-terminal part of Escherichia coli NAD(P) transhydrogenase PntA SWALL:PNTA_ECOLI (SWALL:P07001) (510 aa) 360910007388 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 360910007389 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 360910007390 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 360910007391 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 360910007392 Cysteine-rich domain; Region: CCG; pfam02754 360910007393 Cysteine-rich domain; Region: CCG; pfam02754 360910007396 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 360910007397 FAD binding domain; Region: FAD_binding_4; pfam01565 360910007398 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 360910007399 FAD binding domain; Region: FAD_binding_4; pfam01565 360910007400 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 360910007401 FAD binding domain; Region: FAD_binding_4; pfam01565 360910007402 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 360910007403 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 360910007404 protease TldD; Provisional; Region: tldD; PRK10735 360910007405 H-NS histone family; Region: Histone_HNS; pfam00816 360910007406 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 360910007407 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 360910007409 aminopeptidase N; Provisional; Region: pepN; PRK14015 360910007410 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 360910007411 active site 360910007412 Zn binding site [ion binding]; other site 360910007415 fructose-1,6-bisphosphatase family protein; Region: PLN02628 360910007416 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 360910007417 AMP binding site [chemical binding]; other site 360910007418 metal binding site [ion binding]; metal-binding site 360910007419 active site 360910007420 adhesin (pseudogene);Similar to Fha-family of B. bronchiseptica 360910007425 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 360910007427 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 360910007428 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 360910007429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910007430 catalytic residue [active] 360910007432 homoserine dehydrogenase; Provisional; Region: PRK06349 360910007433 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 360910007434 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 360910007435 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 360910007438 aminotransferase; Validated; Region: PRK08175 360910007439 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 360910007440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910007441 homodimer interface [polypeptide binding]; other site 360910007442 catalytic residue [active] 360910007443 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 360910007445 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360910007446 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 360910007447 catalytic triad [active] 360910007448 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 360910007449 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 360910007450 putative active site [active] 360910007451 PhoH-like protein; Region: PhoH; pfam02562 360910007453 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 360910007454 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 360910007455 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 360910007456 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 360910007457 replicative DNA helicase; Provisional; Region: PRK07004 360910007458 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 360910007459 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 360910007460 Walker A motif; other site 360910007461 ATP binding site [chemical binding]; other site 360910007462 Walker B motif; other site 360910007463 DNA binding loops [nucleotide binding] 360910007465 serine/threonine protein kinase; Provisional; Region: PRK14879 360910007466 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 360910007467 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 360910007468 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 360910007470 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 360910007471 primosomal replication protein N; Reviewed; Region: PRK00036 360910007472 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 360910007473 putative GTP cyclohydrolase; Provisional; Region: PRK13674 360910007474 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 360910007475 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 360910007476 TPP-binding site; other site 360910007477 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 360910007478 PYR/PP interface [polypeptide binding]; other site 360910007479 dimer interface [polypeptide binding]; other site 360910007480 TPP binding site [chemical binding]; other site 360910007481 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360910007483 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360910007484 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360910007485 substrate binding pocket [chemical binding]; other site 360910007486 chain length determination region; other site 360910007487 substrate-Mg2+ binding site; other site 360910007488 catalytic residues [active] 360910007489 aspartate-rich region 1; other site 360910007490 active site lid residues [active] 360910007491 aspartate-rich region 2; other site 360910007495 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 360910007496 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 360910007497 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 360910007498 [2Fe-2S] cluster binding site [ion binding]; other site 360910007499 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 360910007500 alpha subunit interface [polypeptide binding]; other site 360910007501 active site 360910007502 substrate binding site [chemical binding]; other site 360910007503 Fe binding site [ion binding]; other site 360910007504 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360910007505 Zn2+ binding site [ion binding]; other site 360910007506 Mg2+ binding site [ion binding]; other site 360910007507 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 360910007508 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 360910007509 active site residue [active] 360910007510 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 360910007511 active site residue [active] 360910007513 heat shock protein HtpX; Provisional; Region: PRK05457 360910007514 Cupin-like domain; Region: Cupin_8; pfam13621 360910007515 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 360910007516 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 360910007517 NADP binding site [chemical binding]; other site 360910007518 dimer interface [polypeptide binding]; other site 360910007520 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360910007521 EamA-like transporter family; Region: EamA; pfam00892 360910007523 EamA-like transporter family; Region: EamA; pfam00892 360910007524 MarR family; Region: MarR_2; cl17246 360910007525 Transcriptional regulators [Transcription]; Region: MarR; COG1846 360910007526 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360910007528 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 360910007529 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360910007530 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910007531 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 360910007532 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 360910007533 putative substrate translocation pore; other site 360910007534 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 360910007535 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 360910007536 tartrate dehydrogenase; Region: TTC; TIGR02089 360910007538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910007539 DNA-binding site [nucleotide binding]; DNA binding site 360910007540 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 360910007541 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 360910007542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910007543 homodimer interface [polypeptide binding]; other site 360910007544 catalytic residue [active] 360910007545 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360910007546 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 360910007547 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910007548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910007549 dimer interface [polypeptide binding]; other site 360910007550 conserved gate region; other site 360910007551 putative PBP binding loops; other site 360910007552 ABC-ATPase subunit interface; other site 360910007553 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 360910007554 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910007555 dimer interface [polypeptide binding]; other site 360910007556 conserved gate region; other site 360910007557 putative PBP binding loops; other site 360910007558 ABC-ATPase subunit interface; other site 360910007559 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 360910007560 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910007561 Walker A/P-loop; other site 360910007562 ATP binding site [chemical binding]; other site 360910007563 Q-loop/lid; other site 360910007564 ABC transporter signature motif; other site 360910007565 Walker B; other site 360910007566 D-loop; other site 360910007567 H-loop/switch region; other site 360910007568 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 360910007569 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910007570 Walker A/P-loop; other site 360910007571 ATP binding site [chemical binding]; other site 360910007572 Q-loop/lid; other site 360910007573 ABC transporter signature motif; other site 360910007574 Walker B; other site 360910007575 D-loop; other site 360910007576 H-loop/switch region; other site 360910007577 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910007582 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 360910007583 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 360910007584 inhibitor-cofactor binding pocket; inhibition site 360910007585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910007586 catalytic residue [active] 360910007588 Cupin domain; Region: Cupin_2; cl17218 360910007589 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 360910007590 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 360910007591 active site 360910007592 Zn binding site [ion binding]; other site 360910007593 allantoate amidohydrolase; Reviewed; Region: PRK12893 360910007594 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 360910007595 active site 360910007596 metal binding site [ion binding]; metal-binding site 360910007597 dimer interface [polypeptide binding]; other site 360910007599 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360910007600 EamA-like transporter family; Region: EamA; pfam00892 360910007601 EamA-like transporter family; Region: EamA; pfam00892 360910007602 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 360910007603 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 360910007604 NAD(P) binding site [chemical binding]; other site 360910007605 catalytic residues [active] 360910007608 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 360910007609 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 360910007610 putative ligand binding site [chemical binding]; other site 360910007611 NAD binding site [chemical binding]; other site 360910007612 dimerization interface [polypeptide binding]; other site 360910007613 catalytic site [active] 360910007614 aminotransferase; Provisional; Region: PRK06105 360910007615 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 360910007616 inhibitor-cofactor binding pocket; inhibition site 360910007617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910007618 catalytic residue [active] 360910007620 hypothetical protein; Validated; Region: PRK00110 360910007621 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 360910007622 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 360910007623 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 360910007624 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 360910007625 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 360910007626 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 360910007628 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 360910007629 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 360910007630 active site 360910007631 (T/H)XGH motif; other site 360910007632 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 360910007633 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 360910007634 Maf-like protein; Region: Maf; pfam02545 360910007635 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 360910007636 active site 360910007637 dimer interface [polypeptide binding]; other site 360910007638 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 360910007639 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360910007640 endonuclease III; Region: ENDO3c; smart00478 360910007641 minor groove reading motif; other site 360910007642 helix-hairpin-helix signature motif; other site 360910007643 substrate binding pocket [chemical binding]; other site 360910007644 active site 360910007645 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 360910007646 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 360910007647 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 360910007648 DNA binding site [nucleotide binding] 360910007649 active site 360910007651 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 360910007652 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360910007655 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 360910007656 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 360910007657 phosphorylation site [posttranslational modification] 360910007658 dimer interface [polypeptide binding]; other site 360910007659 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 360910007660 ATP binding site [chemical binding]; other site 360910007661 Mg2+ binding site [ion binding]; other site 360910007662 G-X-G motif; other site 360910007663 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 360910007664 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 360910007665 active site 360910007666 phosphorylation site [posttranslational modification] 360910007667 intermolecular recognition site; other site 360910007668 dimerization interface [polypeptide binding]; other site 360910007669 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910007670 Walker A motif; other site 360910007671 ATP binding site [chemical binding]; other site 360910007672 Walker B motif; other site 360910007673 arginine finger; other site 360910007674 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 360910007678 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 360910007679 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 360910007680 tetramer interface [polypeptide binding]; other site 360910007681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910007682 catalytic residue [active] 360910007683 conserved hypothetical protein (pseudogene) 360910007684 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 360910007685 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360910007686 Zn2+ binding site [ion binding]; other site 360910007687 Mg2+ binding site [ion binding]; other site 360910007688 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 360910007689 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 360910007690 S-adenosylmethionine binding site [chemical binding]; other site 360910007691 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360910007692 Synaptobrevin; Region: Synaptobrevin; pfam00957 360910007693 metabolite-proton symporter; Region: 2A0106; TIGR00883 360910007694 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 360910007695 putative substrate translocation pore; other site 360910007696 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 360910007697 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 360910007698 active site 360910007699 Zn binding site [ion binding]; other site 360910007700 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910007701 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910007702 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 360910007703 dimerization interface [polypeptide binding]; other site 360910007705 ribonuclease G; Provisional; Region: PRK11712 360910007706 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 360910007707 homodimer interface [polypeptide binding]; other site 360910007708 oligonucleotide binding site [chemical binding]; other site 360910007709 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 360910007710 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360910007711 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 360910007712 Walker A/P-loop; other site 360910007713 ATP binding site [chemical binding]; other site 360910007714 Q-loop/lid; other site 360910007715 ABC transporter signature motif; other site 360910007716 Walker B; other site 360910007717 D-loop; other site 360910007718 H-loop/switch region; other site 360910007721 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 360910007722 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 360910007723 Uncharacterized conserved protein [Function unknown]; Region: COG1434 360910007724 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 360910007725 putative active site [active] 360910007726 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910007727 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 360910007728 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 360910007729 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 360910007730 putative active site [active] 360910007731 putative metal binding site [ion binding]; other site 360910007732 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910007733 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 360910007735 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360910007736 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 360910007737 putative metal binding site; other site 360910007739 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 360910007740 putative active site [active] 360910007741 putative metal binding site [ion binding]; other site 360910007742 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910007743 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 360910007744 putative ADP-binding pocket [chemical binding]; other site 360910007745 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 360910007746 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 360910007747 putative active site [active] 360910007748 putative PHP Thumb interface [polypeptide binding]; other site 360910007749 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 360910007750 generic binding surface I; other site 360910007751 generic binding surface II; other site 360910007752 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 360910007753 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 360910007754 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 360910007755 ATP binding site [chemical binding]; other site 360910007756 putative Mg++ binding site [ion binding]; other site 360910007757 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 360910007758 nucleotide binding region [chemical binding]; other site 360910007759 ATP-binding site [chemical binding]; other site 360910007760 Helicase associated domain (HA2); Region: HA2; pfam04408 360910007761 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 360910007762 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 360910007764 N-acetylglutamate synthase; Validated; Region: PRK05279 360910007765 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 360910007766 putative feedback inhibition sensing region; other site 360910007767 putative nucleotide binding site [chemical binding]; other site 360910007768 putative substrate binding site [chemical binding]; other site 360910007769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910007770 Coenzyme A binding pocket [chemical binding]; other site 360910007771 oxidative damage protection protein; Provisional; Region: PRK05408 360910007772 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360910007773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360910007774 transcriptional regulator PhoU; Provisional; Region: PRK11115 360910007775 PhoU domain; Region: PhoU; pfam01895 360910007776 PhoU domain; Region: PhoU; pfam01895 360910007777 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 360910007778 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360910007779 active site 360910007780 dimer interface [polypeptide binding]; other site 360910007781 RmuC family; Region: RmuC; pfam02646 360910007782 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 360910007783 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 360910007784 active site 360910007785 DNA binding site [nucleotide binding] 360910007786 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 360910007787 ArsC family; Region: ArsC; pfam03960 360910007788 putative catalytic residues [active] 360910007789 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 360910007790 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910007791 dimer interface [polypeptide binding]; other site 360910007792 conserved gate region; other site 360910007793 putative PBP binding loops; other site 360910007794 ABC-ATPase subunit interface; other site 360910007796 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 360910007797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910007798 dimer interface [polypeptide binding]; other site 360910007799 conserved gate region; other site 360910007800 putative PBP binding loops; other site 360910007801 ABC-ATPase subunit interface; other site 360910007803 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 360910007804 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910007805 Walker A/P-loop; other site 360910007806 ATP binding site [chemical binding]; other site 360910007807 Q-loop/lid; other site 360910007808 ABC transporter signature motif; other site 360910007809 Walker B; other site 360910007810 D-loop; other site 360910007811 H-loop/switch region; other site 360910007812 TOBE domain; Region: TOBE_2; pfam08402 360910007815 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 360910007816 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360910007818 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 360910007819 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 360910007821 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 360910007822 apolar tunnel; other site 360910007823 heme binding site [chemical binding]; other site 360910007824 dimerization interface [polypeptide binding]; other site 360910007825 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 360910007826 FtsX-like permease family; Region: FtsX; pfam02687 360910007827 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 360910007828 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 360910007830 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 360910007831 DctM-like transporters; Region: DctM; pfam06808 360910007832 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 360910007833 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 360910007834 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 360910007835 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 360910007836 gating phenylalanine in ion channel; other site 360910007837 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 360910007838 active site 360910007839 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 360910007840 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 360910007841 dimerization interface 3.5A [polypeptide binding]; other site 360910007842 active site 360910007843 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360910007844 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 360910007845 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360910007847 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 360910007848 tartrate dehydrogenase; Region: TTC; TIGR02089 360910007850 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 360910007851 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 360910007852 substrate binding site [chemical binding]; other site 360910007853 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 360910007854 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 360910007855 substrate binding site [chemical binding]; other site 360910007856 ligand binding site [chemical binding]; other site 360910007859 Peptidase family M48; Region: Peptidase_M48; pfam01435 360910007861 unknown 360910007862 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 360910007863 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 360910007864 Tetramer interface [polypeptide binding]; other site 360910007865 active site 360910007866 FMN-binding site [chemical binding]; other site 360910007869 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910007870 I-site; other site 360910007871 active site 360910007872 metal binding site [ion binding]; metal-binding site 360910007873 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 360910007874 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910007875 active site 360910007876 I-site; other site 360910007877 metal binding site [ion binding]; metal-binding site 360910007878 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 360910007879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360910007880 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 360910007881 ATP binding site [chemical binding]; other site 360910007882 Mg2+ binding site [ion binding]; other site 360910007883 G-X-G motif; other site 360910007884 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910007885 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 360910007886 active site 360910007887 phosphorylation site [posttranslational modification] 360910007888 intermolecular recognition site; other site 360910007889 dimerization interface [polypeptide binding]; other site 360910007890 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910007891 DNA binding site [nucleotide binding] 360910007892 Uncharacterized conserved protein [Function unknown]; Region: COG0397 360910007893 hypothetical protein; Validated; Region: PRK00029 360910007894 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 360910007895 FOG: CBS domain [General function prediction only]; Region: COG0517 360910007896 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_12; cd04625 360910007897 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 360910007898 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 360910007899 FMN binding site [chemical binding]; other site 360910007900 active site 360910007901 catalytic residues [active] 360910007902 substrate binding site [chemical binding]; other site 360910007904 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 360910007905 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 360910007906 putative active site [active] 360910007907 putative substrate binding site [chemical binding]; other site 360910007908 ATP binding site [chemical binding]; other site 360910007910 Type IV pilus 360910007911 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 360910007913 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 360910007914 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360910007915 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 360910007916 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 360910007917 phosphopeptide binding site; other site 360910007918 Type II/IV secretion system protein; Region: T2SE; pfam00437 360910007919 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 360910007920 ATP binding site [chemical binding]; other site 360910007921 Walker A motif; other site 360910007922 hexamer interface [polypeptide binding]; other site 360910007923 Walker B motif; other site 360910007926 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 360910007927 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360910007929 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 360910007930 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 360910007932 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 360910007933 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 360910007934 putative dimer interface [polypeptide binding]; other site 360910007935 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 360910007936 Found in ATP-dependent protease La (LON); Region: LON; smart00464 360910007937 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910007938 Walker A motif; other site 360910007939 ATP binding site [chemical binding]; other site 360910007940 Walker B motif; other site 360910007941 arginine finger; other site 360910007942 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 360910007945 Entericidin EcnA/B family; Region: Entericidin; cl02322 360910007947 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 360910007948 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360910007949 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 360910007950 dimer interface [polypeptide binding]; other site 360910007951 substrate binding site [chemical binding]; other site 360910007952 metal binding sites [ion binding]; metal-binding site 360910007953 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 360910007954 HemY protein N-terminus; Region: HemY_N; pfam07219 360910007955 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 360910007956 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 360910007957 active site 360910007958 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 360910007959 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 360910007960 domain interfaces; other site 360910007961 active site 360910007963 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 360910007964 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 360910007965 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 360910007966 CoA binding domain; Region: CoA_binding; smart00881 360910007967 CoA-ligase; Region: Ligase_CoA; pfam00549 360910007970 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 360910007971 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 360910007972 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 360910007973 CoA-ligase; Region: Ligase_CoA; pfam00549 360910007976 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 360910007977 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 360910007978 CIMS - Cobalamine-independent methonine synthase, or MetE, 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...; Region: CIMS_N_terminal_like; cd03312 360910007979 THF binding site; other site 360910007980 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 360910007981 substrate binding site [chemical binding]; other site 360910007982 THF binding site; other site 360910007983 zinc-binding site [ion binding]; other site 360910007984 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 360910007985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910007986 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 360910007987 putative dimerization interface [polypeptide binding]; other site 360910007989 recombination regulator RecX; Reviewed; Region: recX; PRK00117 360910007990 recombinase A; Provisional; Region: recA; PRK09354 360910007991 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 360910007992 hexamer interface [polypeptide binding]; other site 360910007993 Walker A motif; other site 360910007994 ATP binding site [chemical binding]; other site 360910007995 Walker B motif; other site 360910007998 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910007999 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 360910008000 active site 360910008001 phosphorylation site [posttranslational modification] 360910008002 intermolecular recognition site; other site 360910008003 dimerization interface [polypeptide binding]; other site 360910008004 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910008005 DNA binding site [nucleotide binding] 360910008006 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 360910008007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360910008008 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910008009 dimer interface [polypeptide binding]; other site 360910008010 phosphorylation site [posttranslational modification] 360910008011 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 360910008012 ATP binding site [chemical binding]; other site 360910008013 Mg2+ binding site [ion binding]; other site 360910008014 G-X-G motif; other site 360910008015 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 360910008016 putative substrate translocation pore; other site 360910008018 recombination associated protein; Reviewed; Region: rdgC; PRK00321 360910008019 aspartate carbamoyltransferase; Provisional; Region: PRK11891 360910008020 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360910008021 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360910008024 Entericidin EcnA/B family; Region: Entericidin; cl02322 360910008026 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 360910008027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910008028 DNA-binding site [nucleotide binding]; DNA binding site 360910008029 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 360910008030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910008031 homodimer interface [polypeptide binding]; other site 360910008032 catalytic residue [active] 360910008034 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360910008035 Zn2+ binding site [ion binding]; other site 360910008036 Mg2+ binding site [ion binding]; other site 360910008038 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 360910008040 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 360910008041 DNA-binding site [nucleotide binding]; DNA binding site 360910008042 RNA-binding motif; other site 360910008044 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 360910008045 dimer interface [polypeptide binding]; other site 360910008046 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 360910008047 ligand binding site [chemical binding]; other site 360910008048 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 360910008049 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 360910008050 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 360910008051 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 360910008052 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360910008053 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 360910008054 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910008055 DNA binding residues [nucleotide binding] 360910008058 DNA primase, catalytic core; Region: dnaG; TIGR01391 360910008059 CHC2 zinc finger; Region: zf-CHC2; pfam01807 360910008060 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 360910008061 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 360910008062 active site 360910008063 metal binding site [ion binding]; metal-binding site 360910008064 interdomain interaction site; other site 360910008065 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 360910008066 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 360910008068 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 360910008070 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 360910008071 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360910008072 active site 360910008074 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 360910008075 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 360910008076 GDP-binding site [chemical binding]; other site 360910008077 ACT binding site; other site 360910008078 IMP binding site; other site 360910008081 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 360910008082 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 360910008083 dimer interface [polypeptide binding]; other site 360910008084 motif 1; other site 360910008085 active site 360910008086 motif 2; other site 360910008087 motif 3; other site 360910008088 HflC protein; Region: hflC; TIGR01932 360910008089 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 360910008091 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 360910008092 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 360910008093 HflK protein; Region: hflK; TIGR01933 360910008094 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 360910008095 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 360910008096 HflX GTPase family; Region: HflX; cd01878 360910008097 G1 box; other site 360910008098 GTP/Mg2+ binding site [chemical binding]; other site 360910008099 Switch I region; other site 360910008100 G2 box; other site 360910008101 G3 box; other site 360910008102 Switch II region; other site 360910008103 G4 box; other site 360910008104 G5 box; other site 360910008106 bacterial Hfq-like; Region: Hfq; cd01716 360910008107 hexamer interface [polypeptide binding]; other site 360910008108 Sm1 motif; other site 360910008109 RNA binding site [nucleotide binding]; other site 360910008110 Sm2 motif; other site 360910008111 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 360910008112 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 360910008113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910008114 homodimer interface [polypeptide binding]; other site 360910008115 catalytic residue [active] 360910008118 GTP-binding protein Der; Reviewed; Region: PRK00093 360910008119 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 360910008120 G1 box; other site 360910008121 GTP/Mg2+ binding site [chemical binding]; other site 360910008122 Switch I region; other site 360910008123 G2 box; other site 360910008124 Switch II region; other site 360910008125 G3 box; other site 360910008126 G4 box; other site 360910008127 G5 box; other site 360910008128 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 360910008129 G1 box; other site 360910008130 GTP/Mg2+ binding site [chemical binding]; other site 360910008131 Switch I region; other site 360910008132 G2 box; other site 360910008133 G3 box; other site 360910008134 Switch II region; other site 360910008135 G4 box; other site 360910008136 G5 box; other site 360910008139 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 360910008140 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 360910008141 Trp docking motif [polypeptide binding]; other site 360910008142 active site 360910008144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 360910008145 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 360910008146 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 360910008147 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 360910008148 dimer interface [polypeptide binding]; other site 360910008149 motif 1; other site 360910008150 active site 360910008151 motif 2; other site 360910008152 motif 3; other site 360910008153 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 360910008154 anticodon binding site; other site 360910008156 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 360910008157 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360910008158 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360910008160 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 360910008161 non-specific DNA binding site [nucleotide binding]; other site 360910008162 salt bridge; other site 360910008163 sequence-specific DNA binding site [nucleotide binding]; other site 360910008164 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 360910008165 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 360910008166 FeS/SAM binding site; other site 360910008167 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 360910008168 active site 360910008169 multimer interface [polypeptide binding]; other site 360910008171 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 360910008172 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360910008173 active site 360910008174 HIGH motif; other site 360910008175 nucleotide binding site [chemical binding]; other site 360910008176 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360910008177 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360910008178 active site 360910008179 KMSKS motif; other site 360910008180 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 360910008181 tRNA binding surface [nucleotide binding]; other site 360910008182 anticodon binding site; other site 360910008183 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 360910008187 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 360910008189 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 360910008190 RimM N-terminal domain; Region: RimM; pfam01782 360910008191 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 360910008192 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 360910008193 CPxP motif; other site 360910008194 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 360910008195 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 360910008196 motif 1; other site 360910008197 active site 360910008198 motif 2; other site 360910008199 motif 3; other site 360910008200 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 360910008202 Type IV pilus 360910008203 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 360910008204 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 360910008206 Type II/IV secretion system protein; Region: T2SE; pfam00437 360910008207 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 360910008208 Walker A motif; other site 360910008209 ATP binding site [chemical binding]; other site 360910008210 Walker B motif; other site 360910008212 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 360910008213 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360910008215 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 360910008216 VirB7 interaction site; other site 360910008217 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 360910008219 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 360910008220 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360910008221 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 360910008222 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 360910008223 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 360910008224 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 360910008225 catalytic loop [active] 360910008226 iron binding site [ion binding]; other site 360910008227 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 360910008228 FAD binding pocket [chemical binding]; other site 360910008229 FAD binding motif [chemical binding]; other site 360910008230 phosphate binding motif [ion binding]; other site 360910008231 beta-alpha-beta structure motif; other site 360910008232 NAD binding pocket [chemical binding]; other site 360910008234 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 360910008235 tetramerization interface [polypeptide binding]; other site 360910008236 active site 360910008237 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 360910008238 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 360910008239 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 360910008240 MOSC domain; Region: MOSC; pfam03473 360910008242 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 360910008243 Ectoine synthase; Region: Ectoine_synth; pfam06339 360910008244 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 360910008245 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 360910008246 inhibitor-cofactor binding pocket; inhibition site 360910008247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910008248 catalytic residue [active] 360910008250 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360910008251 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910008252 Coenzyme A binding pocket [chemical binding]; other site 360910008253 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910008254 MarR family; Region: MarR; pfam01047 360910008256 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 360910008257 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 360910008258 CAP-like domain; other site 360910008259 active site 360910008260 primary dimer interface [polypeptide binding]; other site 360910008261 YcxB-like protein; Region: YcxB; pfam14317 360910008262 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 360910008263 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 360910008264 ATP binding site [chemical binding]; other site 360910008265 Mg2+ binding site [ion binding]; other site 360910008266 G-X-G motif; other site 360910008267 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 360910008268 anchoring element; other site 360910008269 dimer interface [polypeptide binding]; other site 360910008270 ATP binding site [chemical binding]; other site 360910008271 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 360910008272 active site 360910008273 metal binding site [ion binding]; metal-binding site 360910008274 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360910008277 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 360910008278 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360910008279 catalytic residues [active] 360910008281 transcription termination factor Rho; Provisional; Region: rho; PRK09376 360910008282 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 360910008283 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 360910008284 RNA binding site [nucleotide binding]; other site 360910008285 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 360910008286 multimer interface [polypeptide binding]; other site 360910008287 Walker A motif; other site 360910008288 ATP binding site [chemical binding]; other site 360910008289 Walker B motif; other site 360910008291 TIGR02099 family protein; Region: TIGR02099 360910008292 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 360910008293 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 360910008294 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 360910008295 metal binding triad; other site 360910008296 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 360910008297 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 360910008298 metal binding triad; other site 360910008299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 360910008300 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 360910008301 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 360910008302 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 360910008304 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 360910008305 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 360910008306 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 360910008307 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 360910008308 DNA polymerase I; Provisional; Region: PRK05755 360910008309 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 360910008310 active site 360910008311 metal binding site 1 [ion binding]; metal-binding site 360910008312 putative 5' ssDNA interaction site; other site 360910008313 metal binding site 3; metal-binding site 360910008314 metal binding site 2 [ion binding]; metal-binding site 360910008315 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 360910008316 putative DNA binding site [nucleotide binding]; other site 360910008317 putative metal binding site [ion binding]; other site 360910008318 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 360910008319 active site 360910008320 catalytic site [active] 360910008321 substrate binding site [chemical binding]; other site 360910008322 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 360910008323 active site 360910008324 DNA binding site [nucleotide binding] 360910008325 catalytic site [active] 360910008327 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 360910008328 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 360910008329 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 360910008330 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 360910008331 G1 box; other site 360910008332 putative GEF interaction site [polypeptide binding]; other site 360910008333 GTP/Mg2+ binding site [chemical binding]; other site 360910008334 Switch I region; other site 360910008335 G2 box; other site 360910008336 G3 box; other site 360910008337 Switch II region; other site 360910008338 G4 box; other site 360910008339 G5 box; other site 360910008340 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 360910008341 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 360910008344 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00020 360910008345 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 360910008346 RNA binding site [nucleotide binding]; other site 360910008347 active site 360910008348 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 360910008349 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 360910008350 translation initiation factor IF-2; Region: IF-2; TIGR00487 360910008351 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360910008352 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 360910008353 G1 box; other site 360910008354 putative GEF interaction site [polypeptide binding]; other site 360910008355 GTP/Mg2+ binding site [chemical binding]; other site 360910008356 Switch I region; other site 360910008357 G2 box; other site 360910008358 G3 box; other site 360910008359 Switch II region; other site 360910008360 G4 box; other site 360910008361 G5 box; other site 360910008362 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 360910008363 Translation-initiation factor 2; Region: IF-2; pfam11987 360910008364 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 360910008367 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 360910008368 NusA N-terminal domain; Region: NusA_N; pfam08529 360910008369 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 360910008370 RNA binding site [nucleotide binding]; other site 360910008371 homodimer interface [polypeptide binding]; other site 360910008372 NusA-like KH domain; Region: KH_5; pfam13184 360910008373 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 360910008374 G-X-X-G motif; other site 360910008375 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 360910008376 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 360910008378 ribosome maturation protein RimP; Reviewed; Region: PRK00092 360910008379 Sm and related proteins; Region: Sm_like; cl00259 360910008380 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 360910008381 putative oligomer interface [polypeptide binding]; other site 360910008382 putative RNA binding site [nucleotide binding]; other site 360910008383 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 360910008384 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 360910008385 RNA binding surface [nucleotide binding]; other site 360910008386 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 360910008387 probable active site [active] 360910008391 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 360910008392 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 360910008393 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 360910008394 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 360910008396 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 360910008397 maleylacetoacetate isomerase; Region: maiA; TIGR01262 360910008398 C-terminal domain interface [polypeptide binding]; other site 360910008399 GSH binding site (G-site) [chemical binding]; other site 360910008400 putative dimer interface [polypeptide binding]; other site 360910008401 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 360910008402 dimer interface [polypeptide binding]; other site 360910008403 N-terminal domain interface [polypeptide binding]; other site 360910008404 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 360910008405 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 360910008406 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 360910008407 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360910008408 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 360910008409 hypothetical protein; Reviewed; Region: PRK00024 360910008410 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 360910008411 MPN+ (JAMM) motif; other site 360910008412 Zinc-binding site [ion binding]; other site 360910008414 arylformamidase; Region: trp_arylform; TIGR03035 360910008415 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 360910008417 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 360910008419 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 360910008420 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 360910008421 putative efflux protein, MATE family; Region: matE; TIGR00797 360910008422 cation binding site [ion binding]; other site 360910008424 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360910008425 DNA repair protein RadA; Provisional; Region: PRK11823 360910008426 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 360910008427 Walker A motif/ATP binding site; other site 360910008428 ATP binding site [chemical binding]; other site 360910008429 Walker B motif; other site 360910008430 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360910008432 short chain dehydrogenase; Provisional; Region: PRK07577 360910008433 classical (c) SDRs; Region: SDR_c; cd05233 360910008434 NAD(P) binding site [chemical binding]; other site 360910008435 active site 360910008437 alanine racemase; Reviewed; Region: alr; PRK00053 360910008438 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 360910008439 active site 360910008440 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360910008441 substrate binding site [chemical binding]; other site 360910008442 catalytic residues [active] 360910008443 dimer interface [polypeptide binding]; other site 360910008445 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 360910008446 catalytic residues [active] 360910008447 substrate binding pocket [chemical binding]; other site 360910008448 substrate-Mg2+ binding site; other site 360910008449 aspartate-rich region 1; other site 360910008450 aspartate-rich region 2; other site 360910008451 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 360910008452 active site lid residues [active] 360910008453 substrate binding pocket [chemical binding]; other site 360910008454 catalytic residues [active] 360910008455 substrate-Mg2+ binding site; other site 360910008456 aspartate-rich region 1; other site 360910008457 aspartate-rich region 2; other site 360910008460 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 360910008461 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360910008462 CrcB-like protein; Region: CRCB; cl09114 360910008463 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 360910008464 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 360910008465 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 360910008466 active site 360910008467 putative substrate binding pocket [chemical binding]; other site 360910008468 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 360910008469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910008470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910008471 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 360910008472 dimerization interface [polypeptide binding]; other site 360910008474 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 360910008475 Clp amino terminal domain; Region: Clp_N; pfam02861 360910008476 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910008477 Walker A motif; other site 360910008478 ATP binding site [chemical binding]; other site 360910008479 Walker B motif; other site 360910008480 arginine finger; other site 360910008481 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910008482 Walker A motif; other site 360910008483 ATP binding site [chemical binding]; other site 360910008484 Walker B motif; other site 360910008485 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360910008491 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 360910008492 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360910008493 ligand binding site [chemical binding]; other site 360910008494 flexible hinge region; other site 360910008495 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 360910008496 putative switch regulator; other site 360910008497 non-specific DNA interactions [nucleotide binding]; other site 360910008498 DNA binding site [nucleotide binding] 360910008499 sequence specific DNA binding site [nucleotide binding]; other site 360910008500 putative cAMP binding site [chemical binding]; other site 360910008502 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 360910008503 catalytic loop [active] 360910008504 iron binding site [ion binding]; other site 360910008505 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 360910008506 dimer interface [polypeptide binding]; other site 360910008507 ADP-ribose binding site [chemical binding]; other site 360910008508 active site 360910008509 nudix motif; other site 360910008510 metal binding site [ion binding]; metal-binding site 360910008512 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360910008513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910008514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910008515 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 360910008516 putative dimerization interface [polypeptide binding]; other site 360910008518 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 360910008519 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 360910008520 putative active site [active] 360910008521 Zn binding site [ion binding]; other site 360910008523 NlpE N-terminal domain; Region: NlpE; pfam04170 360910008525 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 360910008526 OsmC-like protein; Region: OsmC; pfam02566 360910008527 Protein of unknown function (DUF465); Region: DUF465; cl01070 360910008528 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 360910008529 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 360910008530 putative substrate translocation pore; other site 360910008531 LysR-family transcriptional regulator (pseudogene) 360910008532 putative L-aspartate dehydrogenase; Provisional; Region: PRK13302 360910008533 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 360910008534 Domain of unknown function DUF108; Region: DUF108; pfam01958 360910008535 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 360910008536 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 360910008537 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 360910008538 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910008539 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910008540 metal binding site [ion binding]; metal-binding site 360910008541 active site 360910008542 I-site; other site 360910008543 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 360910008544 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 360910008545 ABC-2 type transporter; Region: ABC2_membrane; cl17235 360910008546 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 360910008547 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 360910008548 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 360910008549 Walker A/P-loop; other site 360910008550 ATP binding site [chemical binding]; other site 360910008551 Q-loop/lid; other site 360910008552 ABC transporter signature motif; other site 360910008553 Walker B; other site 360910008554 D-loop; other site 360910008555 H-loop/switch region; other site 360910008558 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 360910008559 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910008560 MarR family; Region: MarR; pfam01047 360910008561 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 360910008562 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 360910008563 inhibitor-cofactor binding pocket; inhibition site 360910008564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910008565 catalytic residue [active] 360910008567 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 360910008568 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 360910008569 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360910008570 catalytic residue [active] 360910008572 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 360910008573 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 360910008574 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 360910008575 S-adenosylmethionine binding site [chemical binding]; other site 360910008576 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 360910008577 AAA domain; Region: AAA_26; pfam13500 360910008578 autotransporter (putative serine protease) (pseudogene) 360910008579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 360910008580 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 360910008581 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 360910008582 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 360910008583 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360910008584 putative substrate translocation pore; other site 360910008585 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 360910008587 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 360910008588 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 360910008589 active site 360910008590 catalytic site [active] 360910008591 putative DNA binding site [nucleotide binding]; other site 360910008592 GIY-YIG motif/motif A; other site 360910008593 metal binding site [ion binding]; metal-binding site 360910008594 UvrB/uvrC motif; Region: UVR; pfam02151 360910008595 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 360910008596 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 360910008597 beta-hexosaminidase; Provisional; Region: PRK05337 360910008598 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 360910008599 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 360910008600 active site 360910008601 hydrophilic channel; other site 360910008602 dimerization interface [polypeptide binding]; other site 360910008603 catalytic residues [active] 360910008604 active site lid [active] 360910008605 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360910008607 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 360910008608 Protein export membrane protein; Region: SecD_SecF; cl14618 360910008609 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 360910008610 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360910008611 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910008613 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910008614 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910008615 DNA binding site [nucleotide binding] 360910008616 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 360910008618 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 360910008619 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 360910008620 molybdenum-pterin binding domain; Region: Mop; TIGR00638 360910008621 molybdenum-pterin binding domain; Region: Mop; TIGR00638 360910008622 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 360910008623 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910008624 Walker A/P-loop; other site 360910008625 ATP binding site [chemical binding]; other site 360910008626 Q-loop/lid; other site 360910008627 ABC transporter signature motif; other site 360910008628 Walker B; other site 360910008629 D-loop; other site 360910008630 H-loop/switch region; other site 360910008632 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 360910008633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910008634 dimer interface [polypeptide binding]; other site 360910008635 conserved gate region; other site 360910008636 putative PBP binding loops; other site 360910008637 ABC-ATPase subunit interface; other site 360910008638 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 360910008639 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360910008641 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 360910008642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910008643 Walker A/P-loop; other site 360910008644 ATP binding site [chemical binding]; other site 360910008645 Q-loop/lid; other site 360910008646 ABC transporter signature motif; other site 360910008647 Walker B; other site 360910008648 D-loop; other site 360910008649 H-loop/switch region; other site 360910008652 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910008653 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 360910008654 TM-ABC transporter signature motif; other site 360910008655 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 360910008656 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 360910008657 zinc binding site [ion binding]; other site 360910008658 putative ligand binding site [chemical binding]; other site 360910008659 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 360910008660 catalytic tetrad [active] 360910008661 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 360910008662 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 360910008663 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 360910008664 E-class dimer interface [polypeptide binding]; other site 360910008665 P-class dimer interface [polypeptide binding]; other site 360910008666 active site 360910008667 Cu2+ binding site [ion binding]; other site 360910008668 Zn2+ binding site [ion binding]; other site 360910008670 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 360910008671 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 360910008672 beta-ketothiolase; Provisional; Region: PRK09051 360910008673 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 360910008674 dimer interface [polypeptide binding]; other site 360910008675 active site 360910008678 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910008679 Coenzyme A binding pocket [chemical binding]; other site 360910008680 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 360910008681 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 360910008682 Walker A/P-loop; other site 360910008683 ATP binding site [chemical binding]; other site 360910008684 Q-loop/lid; other site 360910008685 ABC transporter signature motif; other site 360910008686 Walker B; other site 360910008687 D-loop; other site 360910008688 H-loop/switch region; other site 360910008689 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 360910008692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910008693 dimer interface [polypeptide binding]; other site 360910008694 conserved gate region; other site 360910008695 putative PBP binding loops; other site 360910008696 ABC-ATPase subunit interface; other site 360910008698 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 360910008699 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 360910008700 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 360910008701 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 360910008702 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 360910008703 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 360910008704 putative substrate translocation pore; other site 360910008705 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 360910008706 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 360910008707 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 360910008708 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 360910008709 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 360910008710 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 360910008711 Sulfate transporter family; Region: Sulfate_transp; pfam00916 360910008712 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 360910008713 bacterial (prokaryotic) histone like domain; Region: BHL; smart00411 360910008714 IHF - DNA interface [nucleotide binding]; other site 360910008715 IHF dimer interface [polypeptide binding]; other site 360910008716 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910008717 MarR family; Region: MarR; pfam01047 360910008718 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 360910008719 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 360910008720 putative substrate translocation pore; other site 360910008722 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 360910008723 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360910008724 HIGH motif; other site 360910008725 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360910008726 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360910008727 active site 360910008728 KMSKS motif; other site 360910008729 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 360910008730 tRNA binding surface [nucleotide binding]; other site 360910008732 Lipopolysaccharide-assembly; Region: LptE; cl01125 360910008734 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 360910008735 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 360910008736 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 360910008737 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 360910008738 putative catalytic cysteine [active] 360910008739 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360910008740 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910008741 Coenzyme A binding pocket [chemical binding]; other site 360910008742 amidase; Provisional; Region: PRK07487 360910008743 Amidase; Region: Amidase; cl11426 360910008745 Predicted acetyltransferase [General function prediction only]; Region: COG2388 360910008746 hypothetical protein; Provisional; Region: PRK01842 360910008747 SEC-C motif; Region: SEC-C; pfam02810 360910008748 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 360910008749 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 360910008750 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 360910008751 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 360910008752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910008753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910008754 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 360910008755 putative dimerization interface [polypeptide binding]; other site 360910008757 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 360910008758 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 360910008759 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360910008761 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 360910008762 EamA-like transporter family; Region: EamA; pfam00892 360910008764 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 360910008765 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 360910008766 homodimer interface [polypeptide binding]; other site 360910008767 chemical substrate binding site [chemical binding]; other site 360910008768 oligomer interface [polypeptide binding]; other site 360910008769 metal binding site [ion binding]; metal-binding site 360910008770 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 360910008771 active site 360910008772 catalytic site [active] 360910008773 substrate binding site [chemical binding]; other site 360910008774 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 360910008775 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 360910008776 substrate binding site [chemical binding]; other site 360910008777 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 360910008778 substrate binding site [chemical binding]; other site 360910008779 ligand binding site [chemical binding]; other site 360910008781 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 360910008782 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 360910008783 putative molybdopterin cofactor binding site [chemical binding]; other site 360910008784 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 360910008785 putative molybdopterin cofactor binding site; other site 360910008786 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 360910008787 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 360910008788 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 360910008789 N-terminal plug; other site 360910008790 ligand-binding site [chemical binding]; other site 360910008793 putative lipoprotein (pseudogene) 360910008794 aconitate hydratase; Validated; Region: PRK09277 360910008795 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 360910008796 substrate binding site [chemical binding]; other site 360910008797 ligand binding site [chemical binding]; other site 360910008798 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 360910008799 substrate binding site [chemical binding]; other site 360910008802 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 360910008803 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 360910008804 putative active site [active] 360910008805 metal binding site [ion binding]; metal-binding site 360910008806 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 360910008807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 360910008808 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 360910008809 elongation factor P; Validated; Region: PRK00529 360910008810 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 360910008811 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 360910008812 RNA binding site [nucleotide binding]; other site 360910008813 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 360910008814 RNA binding site [nucleotide binding]; other site 360910008815 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 360910008816 classical (c) SDRs; Region: SDR_c; cd05233 360910008817 NAD(P) binding site [chemical binding]; other site 360910008818 active site 360910008820 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 360910008821 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 360910008822 trimer interface [polypeptide binding]; other site 360910008823 eyelet of channel; other site 360910008824 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 360910008825 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 360910008826 LysR-family transcriptional regulator (pseudogene) 360910008827 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 360910008828 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 360910008830 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910008831 Walker B motif; other site 360910008832 arginine finger; other site 360910008833 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 360910008835 Degenerate locus encoding type IV pilus 360910008836 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 360910008837 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360910008838 putative type IV pilus assembly protein (pseudogene) 360910008841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 360910008842 Response regulator receiver domain; Region: Response_reg; pfam00072 360910008843 active site 360910008844 phosphorylation site [posttranslational modification] 360910008845 dimerization interface [polypeptide binding]; other site 360910008846 AAA domain; Region: AAA_31; pfam13614 360910008847 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360910008848 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 360910008849 Flp/Fap pilin component; Region: Flp_Fap; cl01585 360910008850 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 360910008851 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 360910008852 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 360910008853 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 360910008854 putative exported protein (pseudogene) 360910008856 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910008857 MarR family; Region: MarR; pfam01047 360910008858 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 360910008859 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910008860 Walker A/P-loop; other site 360910008861 ATP binding site [chemical binding]; other site 360910008862 Q-loop/lid; other site 360910008863 ABC transporter signature motif; other site 360910008864 Walker B; other site 360910008865 D-loop; other site 360910008866 H-loop/switch region; other site 360910008867 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910008868 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910008869 Walker A/P-loop; other site 360910008870 ATP binding site [chemical binding]; other site 360910008871 Q-loop/lid; other site 360910008872 ABC transporter signature motif; other site 360910008873 Walker B; other site 360910008874 D-loop; other site 360910008875 H-loop/switch region; other site 360910008876 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910008881 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 360910008882 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910008883 dimer interface [polypeptide binding]; other site 360910008884 conserved gate region; other site 360910008885 putative PBP binding loops; other site 360910008886 ABC-ATPase subunit interface; other site 360910008888 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910008889 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910008890 dimer interface [polypeptide binding]; other site 360910008891 conserved gate region; other site 360910008892 putative PBP binding loops; other site 360910008893 ABC-ATPase subunit interface; other site 360910008895 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360910008896 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_18; cd08505 360910008897 Staphylococcal nuclease homologues; Region: SNc; smart00318 360910008898 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 360910008899 Catalytic site; other site 360910008900 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 360910008901 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 360910008902 oligomer interface [polypeptide binding]; other site 360910008903 metal binding site [ion binding]; metal-binding site 360910008904 metal binding site [ion binding]; metal-binding site 360910008905 putative Cl binding site [ion binding]; other site 360910008906 basic sphincter; other site 360910008907 hydrophobic gate; other site 360910008908 periplasmic entrance; other site 360910008909 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360910008910 Part of AAA domain; Region: AAA_19; pfam13245 360910008911 Family description; Region: UvrD_C_2; pfam13538 360910008913 Protein of unknown function DUF72; Region: DUF72; pfam01904 360910008914 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 360910008915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910008916 DNA-binding site [nucleotide binding]; DNA binding site 360910008917 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 360910008918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910008919 homodimer interface [polypeptide binding]; other site 360910008920 catalytic residue [active] 360910008921 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 360910008922 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 360910008923 inhibitor-cofactor binding pocket; inhibition site 360910008924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910008925 catalytic residue [active] 360910008928 succinic semialdehyde dehydrogenase; Region: PLN02278 360910008929 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 360910008930 tetramerization interface [polypeptide binding]; other site 360910008931 NAD(P) binding site [chemical binding]; other site 360910008932 catalytic residues [active] 360910008935 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 360910008936 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 360910008937 active site 360910008938 putative lithium-binding site [ion binding]; other site 360910008939 substrate binding site [chemical binding]; other site 360910008940 NAD-dependent deacetylase; Provisional; Region: PRK05333 360910008941 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 360910008942 serine O-acetyltransferase; Region: cysE; TIGR01172 360910008943 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 360910008944 trimer interface [polypeptide binding]; other site 360910008945 active site 360910008946 substrate binding site [chemical binding]; other site 360910008947 CoA binding site [chemical binding]; other site 360910008948 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 360910008949 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 360910008950 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 360910008951 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 360910008952 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 360910008953 substrate binding site [chemical binding]; other site 360910008954 oxyanion hole (OAH) forming residues; other site 360910008955 trimer interface [polypeptide binding]; other site 360910008956 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 360910008957 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 360910008958 dimer interface [polypeptide binding]; other site 360910008959 active site 360910008963 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 360910008964 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 360910008965 FMN binding site [chemical binding]; other site 360910008966 active site 360910008967 substrate binding site [chemical binding]; other site 360910008968 catalytic residue [active] 360910008970 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 360910008971 dimerization interface [polypeptide binding]; other site 360910008972 putative DNA binding site [nucleotide binding]; other site 360910008973 putative Zn2+ binding site [ion binding]; other site 360910008974 aspartate kinase; Reviewed; Region: PRK06635 360910008975 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 360910008976 putative nucleotide binding site [chemical binding]; other site 360910008977 putative catalytic residues [active] 360910008978 putative Mg ion binding site [ion binding]; other site 360910008979 putative aspartate binding site [chemical binding]; other site 360910008980 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 360910008981 putative allosteric regulatory site; other site 360910008982 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 360910008983 putative allosteric regulatory residue; other site 360910008985 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 360910008986 Ligand Binding Site [chemical binding]; other site 360910008987 TilS substrate binding domain; Region: TilS; pfam09179 360910008988 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 360910008989 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 360910008990 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360910008991 endonuclease III; Region: ENDO3c; smart00478 360910008992 minor groove reading motif; other site 360910008993 helix-hairpin-helix signature motif; other site 360910008994 substrate binding pocket [chemical binding]; other site 360910008995 active site 360910008996 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 360910008997 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360910008998 active site 360910008999 HIGH motif; other site 360910009000 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360910009001 KMSKS motif; other site 360910009002 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 360910009003 tRNA binding surface [nucleotide binding]; other site 360910009004 anticodon binding site; other site 360910009005 TPR repeat; Region: TPR_11; pfam13414 360910009006 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 360910009007 binding surface 360910009008 TPR motif; other site 360910009009 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 360910009010 substrate binding site [chemical binding]; other site 360910009012 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 360910009013 putative active site [active] 360910009014 putative metal binding site [ion binding]; other site 360910009016 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 360910009017 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 360910009018 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 360910009019 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 360910009020 Transporter associated domain; Region: CorC_HlyC; pfam03471 360910009021 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 360910009022 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 360910009023 active site 360910009024 dimerization interface [polypeptide binding]; other site 360910009027 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 360910009028 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 360910009032 Transcriptional regulator [Transcription]; Region: IclR; COG1414 360910009033 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 360910009034 dimerization interface [polypeptide binding]; other site 360910009035 putative Zn2+ binding site [ion binding]; other site 360910009036 putative DNA binding site [nucleotide binding]; other site 360910009037 Bacterial transcriptional regulator; Region: IclR; pfam01614 360910009038 mechanosensitive channel MscS; Provisional; Region: PRK10334 360910009039 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360910009040 putative exported protein (pseudogene) 360910009041 Imelysin; Region: Peptidase_M75; cl09159 360910009042 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 360910009043 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 360910009046 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 360910009047 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 360910009048 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910009049 substrate binding pocket [chemical binding]; other site 360910009050 membrane-bound complex binding site; other site 360910009051 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360910009052 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910009053 dimer interface [polypeptide binding]; other site 360910009054 conserved gate region; other site 360910009055 putative PBP binding loops; other site 360910009056 ABC-ATPase subunit interface; other site 360910009058 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360910009059 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 360910009060 Walker A/P-loop; other site 360910009061 ATP binding site [chemical binding]; other site 360910009062 Q-loop/lid; other site 360910009063 ABC transporter signature motif; other site 360910009064 Walker B; other site 360910009065 D-loop; other site 360910009066 H-loop/switch region; other site 360910009068 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 360910009069 amidase; Provisional; Region: PRK09201 360910009070 Amidase; Region: Amidase; pfam01425 360910009072 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360910009073 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910009074 DNA-binding site [nucleotide binding]; DNA binding site 360910009075 FCD domain; Region: FCD; pfam07729 360910009076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 360910009078 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 360910009079 Predicted flavoprotein [General function prediction only]; Region: COG0431 360910009080 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 360910009081 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 360910009082 MutS domain I; Region: MutS_I; pfam01624 360910009083 MutS domain II; Region: MutS_II; pfam05188 360910009084 MutS domain III; Region: MutS_III; pfam05192 360910009085 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 360910009086 Walker A/P-loop; other site 360910009087 ATP binding site [chemical binding]; other site 360910009088 Q-loop/lid; other site 360910009089 ABC transporter signature motif; other site 360910009090 Walker B; other site 360910009091 D-loop; other site 360910009092 H-loop/switch region; other site 360910009095 Cupin superfamily protein; Region: Cupin_4; pfam08007 360910009096 Cupin-like domain; Region: Cupin_8; pfam13621 360910009097 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 360910009098 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 360910009100 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360910009101 dihydrodipicolinate synthase; Region: dapA; TIGR00674 360910009102 dimer interface [polypeptide binding]; other site 360910009103 active site 360910009104 catalytic residue [active] 360910009107 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 360910009108 Peptidase family M50; Region: Peptidase_M50; pfam02163 360910009109 active site 360910009110 putative substrate binding region [chemical binding]; other site 360910009111 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 360910009112 putative membrane protein (pseudogene) 360910009114 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 360910009115 carbonic anhydrase (pseudogene) 360910009118 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 360910009119 Cupin; Region: Cupin_6; pfam12852 360910009120 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360910009121 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910009122 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 360910009123 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 360910009124 putative active site [active] 360910009125 catalytic site [active] 360910009126 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 360910009127 putative active site [active] 360910009128 catalytic site [active] 360910009129 Peptidase S8 family domain, uncharacterized subfamily 12; Region: Peptidases_S8_12; cd07480 360910009130 active site 360910009131 catalytic triad [active] 360910009134 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...; Region: OMPLA; cl00248 360910009135 substrate binding site [chemical binding]; other site 360910009136 dimerization interface [polypeptide binding]; other site 360910009137 active site 360910009138 calcium binding site [ion binding]; other site 360910009139 hypothetical protein; Provisional; Region: PRK11615 360910009140 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 360910009141 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 360910009143 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 360910009144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910009145 DNA-binding site [nucleotide binding]; DNA binding site 360910009146 FCD domain; Region: FCD; pfam07729 360910009147 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 360910009148 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910009149 Walker A/P-loop; other site 360910009150 ATP binding site [chemical binding]; other site 360910009151 Q-loop/lid; other site 360910009152 ABC transporter signature motif; other site 360910009153 Walker B; other site 360910009154 D-loop; other site 360910009155 H-loop/switch region; other site 360910009156 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910009157 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910009158 Walker A/P-loop; other site 360910009159 ATP binding site [chemical binding]; other site 360910009160 Q-loop/lid; other site 360910009161 ABC transporter signature motif; other site 360910009162 Walker B; other site 360910009163 D-loop; other site 360910009164 H-loop/switch region; other site 360910009165 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910009170 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 360910009171 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910009172 dimer interface [polypeptide binding]; other site 360910009173 conserved gate region; other site 360910009174 putative PBP binding loops; other site 360910009175 ABC-ATPase subunit interface; other site 360910009176 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910009177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910009178 putative PBP binding loops; other site 360910009179 dimer interface [polypeptide binding]; other site 360910009180 ABC-ATPase subunit interface; other site 360910009181 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 360910009182 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910009183 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 360910009184 AsnC family; Region: AsnC_trans_reg; pfam01037 360910009185 putative membrane protein (pseudogene) 360910009186 HdeA/HdeB family; Region: HdeA; pfam06411 360910009187 glutamate decarboxylase alpha/beta;Also similar to BAV2797 (80.679id 38d) 360910009190 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 360910009191 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 360910009192 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; cd00229 360910009193 active site 360910009194 catalytic triad [active] 360910009195 oxyanion hole [active] 360910009196 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 360910009197 binding surface 360910009198 Tetratricopeptide repeat; Region: TPR_16; pfam13432 360910009199 TPR motif; other site 360910009200 TPR repeat; Region: TPR_11; pfam13414 360910009201 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 360910009202 binding surface 360910009203 TPR motif; other site 360910009204 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 360910009205 binding surface 360910009206 TPR motif; other site 360910009207 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 360910009208 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 360910009209 binding surface 360910009210 TPR motif; other site 360910009211 TPR repeat; Region: TPR_11; pfam13414 360910009212 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 360910009213 endo-1,4-D-glucanase; Provisional; Region: PRK11097 360910009214 cellulose synthase regulator protein; Provisional; Region: PRK11114 360910009215 cellulose synthase regulator protein; Provisional; Region: PRK11114 360910009216 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 360910009217 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 360910009218 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 360910009219 DXD motif; other site 360910009220 PilZ domain; Region: PilZ; pfam07238 360910009221 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 360910009222 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 360910009223 P-loop; other site 360910009224 Magnesium ion binding site [ion binding]; other site 360910009225 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 360910009227 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 360910009228 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 360910009229 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 360910009230 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 360910009231 Substrate binding site; other site 360910009232 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 360910009233 locus encoding proteins involved in the biosynthesis and export of capsular polysaccharide 360910009234 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 360910009235 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360910009236 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 360910009237 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 360910009238 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 360910009239 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 360910009240 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 360910009241 SLBB domain; Region: SLBB; pfam10531 360910009242 SLBB domain; Region: SLBB; pfam10531 360910009243 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 360910009244 active site 360910009245 catalytic triad [active] 360910009246 oxyanion hole [active] 360910009247 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 360910009248 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360910009249 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 360910009251 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 360910009252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910009253 NAD(P) binding site [chemical binding]; other site 360910009254 active site 360910009255 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 360910009256 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 360910009257 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 360910009258 DXD motif; other site 360910009259 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 360910009260 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 360910009261 active site 360910009262 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 360910009263 O-Antigen ligase; Region: Wzy_C; pfam04932 360910009264 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 360910009265 chain length determinant protein EpsF; Region: EpsF; TIGR03017 360910009266 Chain length determinant protein; Region: Wzz; pfam02706 360910009268 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 360910009270 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 360910009271 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360910009272 Walker A/P-loop; other site 360910009273 ATP binding site [chemical binding]; other site 360910009274 Q-loop/lid; other site 360910009275 ABC transporter signature motif; other site 360910009276 Walker B; other site 360910009277 D-loop; other site 360910009278 H-loop/switch region; other site 360910009282 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 360910009283 ABC-ATPase subunit interface; other site 360910009284 dimer interface [polypeptide binding]; other site 360910009285 putative PBP binding regions; other site 360910009287 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360910009288 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 360910009289 ABC-ATPase subunit interface; other site 360910009290 dimer interface [polypeptide binding]; other site 360910009291 putative PBP binding regions; other site 360910009292 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 360910009293 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360910009294 putative ligand binding residues [chemical binding]; other site 360910009295 Preprotein translocase SecG subunit; Region: SecG; pfam03840 360910009296 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 360910009297 triosephosphate isomerase; Provisional; Region: PRK14567 360910009298 substrate binding site [chemical binding]; other site 360910009299 dimer interface [polypeptide binding]; other site 360910009300 catalytic triad [active] 360910009302 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 360910009303 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 360910009304 NAD(P) binding site [chemical binding]; other site 360910009305 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910009306 PIN domain; Region: PIN_3; pfam13470 360910009307 threonine dehydratase; Provisional; Region: PRK07334 360910009308 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 360910009309 tetramer interface [polypeptide binding]; other site 360910009310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910009311 catalytic residue [active] 360910009312 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 360910009314 amidase; Provisional; Region: PRK07056 360910009315 Amidase; Region: Amidase; cl11426 360910009316 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 360910009317 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 360910009318 RNase E interface [polypeptide binding]; other site 360910009319 trimer interface [polypeptide binding]; other site 360910009320 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 360910009321 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 360910009322 RNase E interface [polypeptide binding]; other site 360910009323 trimer interface [polypeptide binding]; other site 360910009324 active site 360910009325 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 360910009326 putative nucleic acid binding region [nucleotide binding]; other site 360910009327 G-X-X-G motif; other site 360910009328 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 360910009329 RNA binding site [nucleotide binding]; other site 360910009330 domain interface; other site 360910009331 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 360910009332 16S/18S rRNA binding site [nucleotide binding]; other site 360910009333 S13e-L30e interaction site [polypeptide binding]; other site 360910009334 25S rRNA binding site [nucleotide binding]; other site 360910009336 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 360910009337 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 360910009340 ketol-acid reductoisomerase; Provisional; Region: PRK05479 360910009341 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 360910009342 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 360910009343 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 360910009344 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 360910009345 putative valine binding site [chemical binding]; other site 360910009346 dimer interface [polypeptide binding]; other site 360910009347 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 360910009349 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 360910009350 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360910009351 PYR/PP interface [polypeptide binding]; other site 360910009352 dimer interface [polypeptide binding]; other site 360910009353 TPP binding site [chemical binding]; other site 360910009354 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360910009355 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 360910009356 TPP-binding site [chemical binding]; other site 360910009357 dimer interface [polypeptide binding]; other site 360910009358 Predicted membrane protein [Function unknown]; Region: COG1289 360910009359 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 360910009360 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 360910009362 hypothetical protein; Validated; Region: PRK02101 360910009363 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 360910009364 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 360910009365 NAD binding site [chemical binding]; other site 360910009366 homotetramer interface [polypeptide binding]; other site 360910009367 homodimer interface [polypeptide binding]; other site 360910009368 substrate binding site [chemical binding]; other site 360910009369 active site 360910009371 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 360910009372 active site residue [active] 360910009373 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 360910009374 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 360910009375 dimerization interface [polypeptide binding]; other site 360910009376 putative DNA binding site [nucleotide binding]; other site 360910009377 putative Zn2+ binding site [ion binding]; other site 360910009378 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 360910009379 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910009380 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910009381 metal binding site [ion binding]; metal-binding site 360910009382 active site 360910009383 I-site; other site 360910009384 seryl-tRNA synthetase; Provisional; Region: PRK05431 360910009385 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 360910009386 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 360910009387 dimer interface [polypeptide binding]; other site 360910009388 active site 360910009389 motif 1; other site 360910009390 motif 2; other site 360910009391 motif 3; other site 360910009393 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 360910009394 Spore germination protein; Region: Spore_permease; cl17796 360910009395 arginine decarboxylase; Provisional; Region: PRK15029 360910009396 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 360910009397 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 360910009398 homodimer interface [polypeptide binding]; other site 360910009399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910009400 catalytic residue [active] 360910009401 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 360910009402 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 360910009403 Integrase core domain; Region: rve_3; cl15866 360910009404 putative membrane protein (pseudogene) 360910009406 recombination factor protein RarA; Reviewed; Region: PRK13342 360910009407 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910009408 Walker A motif; other site 360910009409 ATP binding site [chemical binding]; other site 360910009410 Walker B motif; other site 360910009411 arginine finger; other site 360910009412 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 360910009414 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 360910009415 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 360910009416 dimer interface [polypeptide binding]; other site 360910009417 active site 360910009418 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360910009419 substrate binding site [chemical binding]; other site 360910009420 catalytic residue [active] 360910009421 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 360910009422 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 360910009423 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 360910009424 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 360910009425 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 360910009427 thioredoxin reductase; Provisional; Region: PRK10262 360910009428 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360910009429 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910009431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 360910009432 Smr domain; Region: Smr; pfam01713 360910009433 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360910009434 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 360910009435 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 360910009438 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 360910009439 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 360910009440 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 360910009441 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360910009442 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360910009445 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 360910009446 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 360910009447 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 360910009448 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 360910009449 Ligand Binding Site [chemical binding]; other site 360910009450 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 360910009451 GAF domain; Region: GAF_3; pfam13492 360910009452 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910009453 dimer interface [polypeptide binding]; other site 360910009454 phosphorylation site [posttranslational modification] 360910009455 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 360910009456 ATP binding site [chemical binding]; other site 360910009457 Mg2+ binding site [ion binding]; other site 360910009458 G-X-G motif; other site 360910009460 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 360910009461 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 360910009462 active site 360910009463 phosphorylation site [posttranslational modification] 360910009464 intermolecular recognition site; other site 360910009465 dimerization interface [polypeptide binding]; other site 360910009466 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910009467 DNA binding site [nucleotide binding] 360910009468 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 360910009469 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 360910009470 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360910009471 dimer interface [polypeptide binding]; other site 360910009472 active site 360910009473 catalytic residue [active] 360910009477 isocitrate dehydrogenase; Validated; Region: PRK07362 360910009478 isocitrate dehydrogenase; Reviewed; Region: PRK07006 360910009480 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 360910009481 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910009482 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360910009483 Walker A motif; other site 360910009484 ATP binding site [chemical binding]; other site 360910009485 Walker B motif; other site 360910009486 arginine finger; other site 360910009488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 360910009489 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360910009490 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360910009491 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360910009492 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360910009493 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360910009495 chaperone protein DnaJ; Provisional; Region: PRK10767 360910009496 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 360910009497 HSP70 interaction site [polypeptide binding]; other site 360910009498 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 360910009499 substrate binding site [polypeptide binding]; other site 360910009500 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 360910009501 Zn binding sites [ion binding]; other site 360910009502 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360910009503 dimer interface [polypeptide binding]; other site 360910009507 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 360910009508 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 360910009509 nucleotide binding site [chemical binding]; other site 360910009510 NEF interaction site [polypeptide binding]; other site 360910009511 SBD interface [polypeptide binding]; other site 360910009515 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 360910009516 catalytic residues [active] 360910009517 GrpE; Region: GrpE; pfam01025 360910009518 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 360910009519 dimer interface [polypeptide binding]; other site 360910009520 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 360910009522 ferrochelatase; Reviewed; Region: hemH; PRK00035 360910009523 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 360910009524 C-terminal domain interface [polypeptide binding]; other site 360910009525 active site 360910009526 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 360910009527 active site 360910009528 N-terminal domain interface [polypeptide binding]; other site 360910009530 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 360910009531 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 360910009532 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 360910009533 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 360910009534 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 360910009535 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 360910009536 Walker A/P-loop; other site 360910009537 ATP binding site [chemical binding]; other site 360910009538 Q-loop/lid; other site 360910009539 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 360910009540 ABC transporter signature motif; other site 360910009541 Walker B; other site 360910009542 D-loop; other site 360910009543 H-loop/switch region; other site 360910009545 ferric uptake regulator; Provisional; Region: fur; PRK09462 360910009546 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360910009547 metal binding site 2 [ion binding]; metal-binding site 360910009548 putative DNA binding helix; other site 360910009549 metal binding site 1 [ion binding]; metal-binding site 360910009550 dimer interface [polypeptide binding]; other site 360910009551 structural Zn2+ binding site [ion binding]; other site 360910009552 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 360910009553 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 360910009555 dihydrodipicolinate reductase; Provisional; Region: PRK00048 360910009556 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 360910009557 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 360910009559 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 360910009560 FAD binding domain; Region: FAD_binding_4; pfam01565 360910009561 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 360910009562 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 360910009563 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 360910009564 dimerization domain [polypeptide binding]; other site 360910009565 dimer interface [polypeptide binding]; other site 360910009566 catalytic residues [active] 360910009567 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 360910009568 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 360910009569 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360910009570 catalytic residues [active] 360910009572 Uncharacterized conserved protein [Function unknown]; Region: COG1683 360910009573 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360910009574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910009575 DNA-binding site [nucleotide binding]; DNA binding site 360910009576 FCD domain; Region: FCD; pfam07729 360910009577 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 360910009578 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 360910009579 substrate binding site [chemical binding]; other site 360910009580 ligand binding site [chemical binding]; other site 360910009581 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 360910009582 substrate binding site [chemical binding]; other site 360910009583 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 360910009584 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360910009585 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 360910009586 putative hydrophobic ligand binding site [chemical binding]; other site 360910009587 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 360910009588 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 360910009589 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910009590 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 360910009591 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 360910009592 catalytic loop [active] 360910009593 iron binding site [ion binding]; other site 360910009594 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 360910009596 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 360910009597 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 360910009598 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 360910009599 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910009600 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 360910009601 Isochorismatase family; Region: Isochorismatase; pfam00857 360910009602 catalytic triad [active] 360910009603 conserved cis-peptide bond; other site 360910009604 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 360910009605 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910009606 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360910009607 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 360910009608 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910009609 MarR family; Region: MarR; pfam01047 360910009610 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 360910009611 DoxX; Region: DoxX; pfam07681 360910009613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910009614 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 360910009615 putative effector binding pocket; other site 360910009616 dimerization interface [polypeptide binding]; other site 360910009618 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 360910009619 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 360910009620 nudix motif; other site 360910009622 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 360910009623 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 360910009624 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 360910009625 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 360910009626 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 360910009627 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 360910009628 quinone interaction residues [chemical binding]; other site 360910009629 active site 360910009630 catalytic residues [active] 360910009631 FMN binding site [chemical binding]; other site 360910009632 substrate binding site [chemical binding]; other site 360910009635 Phasin protein; Region: Phasin_2; pfam09361 360910009636 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910009637 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 360910009638 Transcriptional regulator [Transcription]; Region: IclR; COG1414 360910009639 Bacterial transcriptional regulator; Region: IclR; pfam01614 360910009641 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 360910009642 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 360910009643 putative MPT binding site; other site 360910009644 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 360910009645 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 360910009646 catalytic residues [active] 360910009647 helicase 45; Provisional; Region: PTZ00424 360910009648 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 360910009649 ATP binding site [chemical binding]; other site 360910009650 Mg++ binding site [ion binding]; other site 360910009651 motif III; other site 360910009652 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 360910009653 nucleotide binding region [chemical binding]; other site 360910009654 ATP-binding site [chemical binding]; other site 360910009657 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 360910009658 AzlC protein; Region: AzlC; pfam03591 360910009659 Zinc-finger domain; Region: zf-CHCC; cl01821 360910009660 SnoaL-like domain; Region: SnoaL_3; pfam13474 360910009661 SnoaL-like domain; Region: SnoaL_2; pfam12680 360910009662 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 360910009663 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 360910009664 Peptidase family M48; Region: Peptidase_M48; pfam01435 360910009667 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 360910009668 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 360910009669 active site 360910009670 tetramer interface; other site 360910009671 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 360910009672 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 360910009673 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360910009674 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 360910009675 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360910009676 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 360910009679 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360910009680 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360910009682 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 360910009683 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 360910009684 proline aminopeptidase P II; Provisional; Region: PRK10879 360910009685 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 360910009686 active site 360910009688 hypothetical protein; Provisional; Region: PRK06996 360910009689 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360910009691 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 360910009692 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 360910009693 FMN binding site [chemical binding]; other site 360910009694 active site 360910009695 catalytic residues [active] 360910009696 substrate binding site [chemical binding]; other site 360910009698 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 360910009699 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 360910009700 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 360910009701 purine monophosphate binding site [chemical binding]; other site 360910009702 dimer interface [polypeptide binding]; other site 360910009703 putative catalytic residues [active] 360910009704 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 360910009705 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 360910009707 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 360910009708 active site 360910009709 putative DNA-binding cleft [nucleotide binding]; other site 360910009710 dimer interface [polypeptide binding]; other site 360910009713 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 360910009714 RuvA N terminal domain; Region: RuvA_N; pfam01330 360910009715 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 360910009718 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 360910009719 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910009720 Walker A motif; other site 360910009721 ATP binding site [chemical binding]; other site 360910009722 Walker B motif; other site 360910009723 arginine finger; other site 360910009724 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 360910009726 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 360910009727 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 360910009728 ATP binding site [chemical binding]; other site 360910009729 putative Mg++ binding site [ion binding]; other site 360910009730 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 360910009731 nucleotide binding region [chemical binding]; other site 360910009732 ATP-binding site [chemical binding]; other site 360910009733 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 360910009734 HRDC domain; Region: HRDC; pfam00570 360910009736 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 360910009738 osmolarity response regulator; Provisional; Region: ompR; PRK09468 360910009739 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 360910009740 active site 360910009741 phosphorylation site [posttranslational modification] 360910009742 intermolecular recognition site; other site 360910009743 dimerization interface [polypeptide binding]; other site 360910009744 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910009745 DNA binding site [nucleotide binding] 360910009746 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360910009747 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 360910009748 ATP binding site [chemical binding]; other site 360910009749 Mg2+ binding site [ion binding]; other site 360910009750 G-X-G motif; other site 360910009751 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 360910009752 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 360910009753 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 360910009754 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 360910009755 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360910009756 active site 360910009757 HIGH motif; other site 360910009758 nucleotide binding site [chemical binding]; other site 360910009759 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360910009760 active site 360910009761 KMSKS motif; other site 360910009762 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 360910009764 septum formation inhibitor; Provisional; Region: minC; PRK00030 360910009765 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 360910009766 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 360910009767 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 360910009768 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 360910009769 Switch I; other site 360910009770 Switch II; other site 360910009772 cell division topological specificity factor MinE; Provisional; Region: PRK13989 360910009774 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 360910009775 catalytic triad [active] 360910009776 conserved cis-peptide bond; other site 360910009777 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 360910009778 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910009779 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910009780 ABC transporter; Region: ABC_tran_2; pfam12848 360910009781 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910009785 glutaminase; Reviewed; Region: PRK12356 360910009786 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 360910009787 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 360910009788 HdeA/HdeB family; Region: HdeA; pfam06411 360910009789 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 360910009790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910009791 catalytic residue [active] 360910009792 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360910009793 EamA-like transporter family; Region: EamA; pfam00892 360910009794 EamA-like transporter family; Region: EamA; pfam00892 360910009795 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 360910009796 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910009797 Walker A/P-loop; other site 360910009798 ATP binding site [chemical binding]; other site 360910009799 Q-loop/lid; other site 360910009800 ABC transporter signature motif; other site 360910009801 Walker B; other site 360910009802 D-loop; other site 360910009803 H-loop/switch region; other site 360910009804 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 360910009807 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 360910009808 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910009809 Walker A/P-loop; other site 360910009810 ATP binding site [chemical binding]; other site 360910009811 Q-loop/lid; other site 360910009812 ABC transporter signature motif; other site 360910009813 Walker B; other site 360910009814 D-loop; other site 360910009815 H-loop/switch region; other site 360910009816 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360910009819 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 360910009820 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910009821 dimer interface [polypeptide binding]; other site 360910009822 conserved gate region; other site 360910009823 putative PBP binding loops; other site 360910009824 ABC-ATPase subunit interface; other site 360910009826 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910009827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910009828 dimer interface [polypeptide binding]; other site 360910009829 conserved gate region; other site 360910009830 putative PBP binding loops; other site 360910009831 ABC-ATPase subunit interface; other site 360910009832 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360910009833 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 360910009834 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 360910009835 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 360910009836 active site 360910009837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910009838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910009839 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 360910009840 putative effector binding pocket; other site 360910009841 dimerization interface [polypeptide binding]; other site 360910009843 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 360910009844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910009845 Walker A/P-loop; other site 360910009846 ATP binding site [chemical binding]; other site 360910009847 Q-loop/lid; other site 360910009848 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360910009849 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910009850 Walker A/P-loop; other site 360910009851 ATP binding site [chemical binding]; other site 360910009852 Q-loop/lid; other site 360910009853 ABC transporter signature motif; other site 360910009854 Walker B; other site 360910009855 D-loop; other site 360910009856 H-loop/switch region; other site 360910009857 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 360910009858 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360910009859 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360910009860 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 360910009867 aminodeoxychorismate synthase; Provisional; Region: PRK07508 360910009868 chorismate binding enzyme; Region: Chorismate_bind; cl10555 360910009869 hypothetical protein; Provisional; Region: PRK07546 360910009870 substrate-cofactor binding pocket; other site 360910009871 homodimer interface [polypeptide binding]; other site 360910009872 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360910009873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910009874 catalytic residue [active] 360910009875 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 360910009876 putative ATP binding site [chemical binding]; other site 360910009877 putative substrate interface [chemical binding]; other site 360910009878 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360910009880 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 360910009881 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360910009882 Walker A/P-loop; other site 360910009883 ATP binding site [chemical binding]; other site 360910009884 Q-loop/lid; other site 360910009885 ABC transporter signature motif; other site 360910009886 Walker B; other site 360910009887 D-loop; other site 360910009888 H-loop/switch region; other site 360910009889 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360910009890 FtsX-like permease family; Region: FtsX; pfam02687 360910009893 putative macrolide-specific efflux protein (pseudogene) 360910009894 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 360910009895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910009896 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 360910009897 dimerization interface [polypeptide binding]; other site 360910009898 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 360910009899 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 360910009900 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 360910009901 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360910009903 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 360910009904 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 360910009905 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 360910009906 putative active site [active] 360910009907 putative substrate binding site [chemical binding]; other site 360910009908 putative cosubstrate binding site; other site 360910009909 catalytic site [active] 360910009910 hydroxyglutarate oxidase; Provisional; Region: PRK11728 360910009911 FAD dependent oxidoreductase; Region: DAO; pfam01266 360910009912 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 360910009913 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 360910009914 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 360910009915 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 360910009917 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 360910009918 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360910009920 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 360910009921 putative active site pocket [active] 360910009922 dimerization interface [polypeptide binding]; other site 360910009923 putative catalytic residue [active] 360910009924 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 360910009925 putative substrate translocation pore; other site 360910009926 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360910009927 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 360910009928 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 360910009929 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 360910009930 homodimer interface [polypeptide binding]; other site 360910009931 substrate-cofactor binding pocket; other site 360910009932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910009933 catalytic residue [active] 360910009934 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 360910009935 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; cd00312 360910009936 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 360910009937 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360910009938 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_13; cd06348 360910009939 putative ligand binding site [chemical binding]; other site 360910009940 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910009941 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 360910009942 TM-ABC transporter signature motif; other site 360910009943 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 360910009944 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910009945 TM-ABC transporter signature motif; other site 360910009947 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910009948 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910009949 Walker A/P-loop; other site 360910009950 ATP binding site [chemical binding]; other site 360910009951 Q-loop/lid; other site 360910009952 ABC transporter signature motif; other site 360910009953 Walker B; other site 360910009954 D-loop; other site 360910009955 H-loop/switch region; other site 360910009958 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910009959 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910009960 Walker A/P-loop; other site 360910009961 ATP binding site [chemical binding]; other site 360910009962 Q-loop/lid; other site 360910009963 ABC transporter signature motif; other site 360910009964 Walker B; other site 360910009965 D-loop; other site 360910009966 H-loop/switch region; other site 360910009969 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 360910009970 Sulfatase; Region: Sulfatase; pfam00884 360910009972 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 360910009973 Sodium Bile acid symporter family; Region: SBF; cl17470 360910009974 poly(beta-D-mannuronate) lyase; Provisional; Region: algL; PRK00325 360910009975 active site 360910009976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 360910009978 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910009979 aldolase II superfamily protein; Provisional; Region: PRK07044 360910009980 intersubunit interface [polypeptide binding]; other site 360910009981 active site 360910009982 Zn2+ binding site [ion binding]; other site 360910009983 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 360910009984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910009985 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 360910009986 dimerization interface [polypeptide binding]; other site 360910009987 substrate binding pocket [chemical binding]; other site 360910009989 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 360910009990 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 360910009991 Autotransporter beta-domain; Region: Autotransporter; pfam03797 360910009992 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 360910009993 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 360910009994 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 360910009995 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 360910009996 FecR protein; Region: FecR; pfam04773 360910009997 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 360910009998 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 360910009999 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360910010000 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360910010001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910010002 dimer interface [polypeptide binding]; other site 360910010003 conserved gate region; other site 360910010004 ABC-ATPase subunit interface; other site 360910010005 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 360910010006 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 360910010007 Walker A/P-loop; other site 360910010008 ATP binding site [chemical binding]; other site 360910010009 Q-loop/lid; other site 360910010010 ABC transporter signature motif; other site 360910010011 Walker B; other site 360910010012 D-loop; other site 360910010013 H-loop/switch region; other site 360910010014 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 360910010017 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 360910010018 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 360910010019 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 360910010020 active site 360910010021 catalytic site [active] 360910010022 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 360910010023 Uncharacterized conserved protein [Function unknown]; Region: COG4121 360910010024 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 360910010025 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 360910010026 active site 360910010027 dimerization interface [polypeptide binding]; other site 360910010030 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 360910010031 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360910010032 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 360910010033 acyl-activating enzyme (AAE) consensus motif; other site 360910010034 putative AMP binding site [chemical binding]; other site 360910010035 putative active site [active] 360910010036 putative CoA binding site [chemical binding]; other site 360910010038 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360910010039 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 360910010040 metal binding site [ion binding]; metal-binding site 360910010041 putative dimer interface [polypeptide binding]; other site 360910010042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910010043 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 360910010044 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 360910010045 putative dimerization interface [polypeptide binding]; other site 360910010046 Predicted membrane protein [Function unknown]; Region: COG2855 360910010047 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 360910010049 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 360910010050 MgtE intracellular N domain; Region: MgtE_N; smart00924 360910010051 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 360910010052 Divalent cation transporter; Region: MgtE; pfam01769 360910010053 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 360910010055 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 360910010056 putative active site pocket [active] 360910010057 dimerization interface [polypeptide binding]; other site 360910010058 putative catalytic residue [active] 360910010059 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910010060 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 360910010061 putative DNA binding site [nucleotide binding]; other site 360910010062 putative Zn2+ binding site [ion binding]; other site 360910010063 AsnC family; Region: AsnC_trans_reg; pfam01037 360910010065 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 360910010066 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 360910010067 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 360910010068 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 360910010069 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 360910010070 SEC-C motif; Region: SEC-C; pfam02810 360910010072 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360910010073 Peptidase family M23; Region: Peptidase_M23; pfam01551 360910010075 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 360910010076 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 360910010077 cell division protein FtsZ; Validated; Region: PRK09330 360910010078 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 360910010079 nucleotide binding site [chemical binding]; other site 360910010080 SulA interaction site; other site 360910010081 cell division protein FtsA; Region: ftsA; TIGR01174 360910010082 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 360910010083 nucleotide binding site [chemical binding]; other site 360910010084 Cell division protein FtsA; Region: FtsA; pfam14450 360910010085 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 360910010086 Cell division protein FtsQ; Region: FtsQ; pfam03799 360910010087 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 360910010088 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 360910010089 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360910010091 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 360910010092 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360910010093 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360910010094 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360910010095 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 360910010096 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 360910010097 active site 360910010098 homodimer interface [polypeptide binding]; other site 360910010099 cell division protein FtsW; Region: ftsW; TIGR02614 360910010101 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 360910010102 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360910010103 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360910010105 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 360910010106 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 360910010107 Mg++ binding site [ion binding]; other site 360910010108 putative catalytic motif [active] 360910010109 putative substrate binding site [chemical binding]; other site 360910010110 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 360910010111 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360910010112 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360910010113 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360910010114 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360910010115 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360910010116 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360910010117 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 360910010118 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360910010119 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360910010121 Cell division protein FtsL; Region: FtsL; cl11433 360910010122 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 360910010123 MraW methylase family; Region: Methyltransf_5; cl17771 360910010125 cell division protein MraZ; Reviewed; Region: PRK00326 360910010126 MraZ protein; Region: MraZ; pfam02381 360910010127 MraZ protein; Region: MraZ; pfam02381 360910010128 ABC transporter ATPase component; Reviewed; Region: PRK11147 360910010129 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910010130 ABC transporter; Region: ABC_tran_2; pfam12848 360910010131 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360910010135 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 360910010136 active site 360910010137 substrate binding pocket [chemical binding]; other site 360910010138 dimer interface [polypeptide binding]; other site 360910010141 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360910010142 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 360910010143 metal binding site [ion binding]; metal-binding site 360910010144 putative dimer interface [polypeptide binding]; other site 360910010145 SWI complex, BAF60b domains; Region: SWIB; smart00151 360910010146 Predicted membrane protein [Function unknown]; Region: COG3671 360910010147 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 360910010148 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 360910010149 putative DNA binding site [nucleotide binding]; other site 360910010150 putative Zn2+ binding site [ion binding]; other site 360910010151 AsnC family; Region: AsnC_trans_reg; pfam01037 360910010152 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 360910010153 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 360910010154 dimer interface [polypeptide binding]; other site 360910010155 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 360910010156 active site 360910010157 Fe binding site [ion binding]; other site 360910010158 methionine sulfoxide reductase A; Provisional; Region: PRK14054 360910010159 Cytochrome c; Region: Cytochrom_C; cl11414 360910010160 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 360910010162 Protein of unknown function (DUF541); Region: SIMPL; cl01077 360910010163 Cell division protein ZapA; Region: ZapA; pfam05164 360910010164 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 360910010165 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 360910010166 putative transporter (pseudogene) 360910010168 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 360910010169 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 360910010171 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 360910010172 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 360910010173 LysR family transcriptional regulator; Provisional; Region: PRK14997 360910010174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910010175 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 360910010176 putative effector binding pocket; other site 360910010177 putative dimerization interface [polypeptide binding]; other site 360910010178 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 360910010179 active site 360910010180 catalytic residues [active] 360910010182 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 360910010183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360910010184 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910010185 dimer interface [polypeptide binding]; other site 360910010186 phosphorylation site [posttranslational modification] 360910010187 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 360910010188 ATP binding site [chemical binding]; other site 360910010189 Mg2+ binding site [ion binding]; other site 360910010190 G-X-G motif; other site 360910010192 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 360910010193 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 360910010194 active site 360910010195 phosphorylation site [posttranslational modification] 360910010196 intermolecular recognition site; other site 360910010197 dimerization interface [polypeptide binding]; other site 360910010198 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910010199 DNA binding site [nucleotide binding] 360910010200 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 360910010201 putative active site [active] 360910010202 Ap4A binding site [chemical binding]; other site 360910010203 nudix motif; other site 360910010204 putative metal binding site [ion binding]; other site 360910010207 prolyl-tRNA synthetase; Provisional; Region: PRK09194 360910010208 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 360910010209 dimer interface [polypeptide binding]; other site 360910010210 motif 1; other site 360910010211 active site 360910010212 motif 2; other site 360910010213 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 360910010214 putative deacylase active site [active] 360910010215 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 360910010216 active site 360910010217 motif 3; other site 360910010218 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 360910010219 anticodon binding site; other site 360910010221 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 360910010222 active site 360910010223 TolQ protein; Region: tolQ; TIGR02796 360910010224 TolR protein; Region: tolR; TIGR02801 360910010225 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360910010226 TolA protein; Region: tolA_full; TIGR02794 360910010227 TonB C terminal; Region: TonB_2; pfam13103 360910010228 translocation protein TolB; Provisional; Region: tolB; PRK02889 360910010229 TolB amino-terminal domain; Region: TolB_N; pfam04052 360910010230 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 360910010231 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 360910010232 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 360910010233 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 360910010234 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360910010235 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360910010236 ligand binding site [chemical binding]; other site 360910010239 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 360910010240 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 360910010241 binding surface 360910010242 TPR motif; other site 360910010243 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910010244 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 360910010245 catalytic site [active] 360910010246 elongation factor G; Reviewed; Region: PRK00007 360910010247 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 360910010248 G1 box; other site 360910010249 putative GEF interaction site [polypeptide binding]; other site 360910010250 GTP/Mg2+ binding site [chemical binding]; other site 360910010251 Switch I region; other site 360910010252 G2 box; other site 360910010253 G3 box; other site 360910010254 Switch II region; other site 360910010255 G4 box; other site 360910010256 G5 box; other site 360910010257 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 360910010258 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 360910010259 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 360910010262 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 360910010263 Ligand Binding Site [chemical binding]; other site 360910010264 Putative phosphatase (DUF442); Region: DUF442; cl17385 360910010265 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 360910010266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910010267 DNA-binding site [nucleotide binding]; DNA binding site 360910010268 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 360910010269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910010270 homodimer interface [polypeptide binding]; other site 360910010271 catalytic residue [active] 360910010272 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360910010273 EamA-like transporter family; Region: EamA; pfam00892 360910010274 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360910010275 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 360910010276 putative homodimer interface [polypeptide binding]; other site 360910010277 putative active site [active] 360910010278 YdjC motif; other site 360910010279 GtrA-like protein; Region: GtrA; pfam04138 360910010280 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 360910010281 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 360910010282 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 360910010283 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 360910010284 Ligand binding site; other site 360910010285 Putative Catalytic site; other site 360910010286 DXD motif; other site 360910010287 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360910010288 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 360910010289 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 360910010290 active site 360910010291 catalytic site [active] 360910010292 substrate binding site [chemical binding]; other site 360910010294 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 360910010295 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360910010296 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360910010297 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910010298 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 360910010299 RNA/DNA hybrid binding site [nucleotide binding]; other site 360910010300 active site 360910010301 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 360910010302 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 360910010303 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 360910010304 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360910010305 catalytic residue [active] 360910010306 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360910010307 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360910010310 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 360910010311 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360910010312 NAD binding site [chemical binding]; other site 360910010313 homotetramer interface [polypeptide binding]; other site 360910010314 homodimer interface [polypeptide binding]; other site 360910010315 substrate binding site [chemical binding]; other site 360910010316 active site 360910010317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 360910010318 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 360910010319 putative metal binding site [ion binding]; other site 360910010320 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910010321 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 360910010322 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 360910010323 dimerization interface [polypeptide binding]; other site 360910010324 active site 360910010325 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 360910010326 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360910010327 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910010328 DNA binding site [nucleotide binding] 360910010329 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 360910010330 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 360910010331 non-specific DNA binding site [nucleotide binding]; other site 360910010332 salt bridge; other site 360910010333 sequence-specific DNA binding site [nucleotide binding]; other site 360910010334 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 360910010335 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 360910010336 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 360910010337 putative NADH binding site [chemical binding]; other site 360910010338 putative active site [active] 360910010339 nudix motif; other site 360910010340 putative metal binding site [ion binding]; other site 360910010342 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 360910010343 putative active site [active] 360910010345 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 360910010346 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 360910010347 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 360910010348 putative active site [active] 360910010349 Zn binding site [ion binding]; other site 360910010350 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 360910010351 SpoVR family protein; Provisional; Region: PRK11767 360910010352 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 360910010353 hypothetical protein; Provisional; Region: PRK05325 360910010354 PrkA family serine protein kinase; Provisional; Region: PRK15455 360910010355 AAA ATPase domain; Region: AAA_16; pfam13191 360910010356 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 360910010359 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 360910010360 Lumazine binding domain; Region: Lum_binding; pfam00677 360910010361 Lumazine binding domain; Region: Lum_binding; pfam00677 360910010362 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 360910010363 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 360910010364 catalytic motif [active] 360910010365 Zn binding site [ion binding]; other site 360910010366 RibD C-terminal domain; Region: RibD_C; cl17279 360910010368 Isochorismatase family; Region: Isochorismatase; pfam00857 360910010369 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 360910010370 catalytic triad [active] 360910010371 conserved cis-peptide bond; other site 360910010372 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 360910010373 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 360910010374 conserved cys residue [active] 360910010375 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910010376 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 360910010377 ATP cone domain; Region: ATP-cone; pfam03477 360910010378 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 360910010379 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 360910010380 dimer interface [polypeptide binding]; other site 360910010381 active site 360910010382 glycine-pyridoxal phosphate binding site [chemical binding]; other site 360910010383 folate binding site [chemical binding]; other site 360910010385 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 360910010386 substrate binding site [chemical binding]; other site 360910010387 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 360910010388 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 360910010389 active site 360910010390 HIGH motif; other site 360910010391 dimer interface [polypeptide binding]; other site 360910010392 KMSKS motif; other site 360910010393 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 360910010394 RNA binding surface [nucleotide binding]; other site 360910010396 putative peptidase; Provisional; Region: PRK11649 360910010397 Peptidase family M23; Region: Peptidase_M23; pfam01551 360910010398 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 360910010400 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 360910010402 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 360910010403 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360910010404 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 360910010406 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 360910010407 23S rRNA interface [nucleotide binding]; other site 360910010408 L3 interface [polypeptide binding]; other site 360910010409 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 360910010410 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 360910010411 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 360910010412 peptidase PmbA; Provisional; Region: PRK11040 360910010413 hypothetical protein; Provisional; Region: PRK05255 360910010414 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 360910010415 putative hydrolase; Provisional; Region: PRK11460 360910010416 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 360910010417 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 360910010418 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 360910010419 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360910010420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360910010421 Coenzyme A binding pocket [chemical binding]; other site 360910010422 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 360910010423 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360910010424 HIGH motif; other site 360910010425 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360910010426 active site 360910010427 KMSKS motif; other site 360910010429 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 360910010430 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360910010432 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910010433 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 360910010434 putative DNA binding site [nucleotide binding]; other site 360910010435 putative Zn2+ binding site [ion binding]; other site 360910010436 AsnC family; Region: AsnC_trans_reg; pfam01037 360910010437 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 360910010438 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 360910010439 dimer interface [polypeptide binding]; other site 360910010440 PYR/PP interface [polypeptide binding]; other site 360910010441 TPP binding site [chemical binding]; other site 360910010442 substrate binding site [chemical binding]; other site 360910010443 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 360910010444 TPP-binding site [chemical binding]; other site 360910010445 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 360910010446 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 360910010447 ATP cone domain; Region: ATP-cone; pfam03477 360910010448 Class I ribonucleotide reductase; Region: RNR_I; cd01679 360910010449 active site 360910010450 dimer interface [polypeptide binding]; other site 360910010451 catalytic residues [active] 360910010452 effector binding site; other site 360910010453 R2 peptide binding site; other site 360910010455 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 360910010456 dimer interface [polypeptide binding]; other site 360910010457 putative radical transfer pathway; other site 360910010458 diiron center [ion binding]; other site 360910010459 tyrosyl radical; other site 360910010460 Rho-activating domain of cytotoxic necrotizing factor; Region: CNF1; pfam05785 360910010461 YGGT family; Region: YGGT; pfam02325 360910010462 YGGT family; Region: YGGT; pfam02325 360910010463 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 360910010464 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 360910010465 acyl-activating enzyme (AAE) consensus motif; other site 360910010466 AMP binding site [chemical binding]; other site 360910010470 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 360910010471 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 360910010472 DltD C-terminal region; Region: DltD_C; pfam04914 360910010473 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 360910010474 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 360910010477 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 360910010478 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 360910010479 substrate binding site [chemical binding]; other site 360910010480 ATP binding site [chemical binding]; other site 360910010482 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 360910010483 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 360910010484 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 360910010485 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 360910010486 S-adenosylmethionine binding site [chemical binding]; other site 360910010488 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 360910010489 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360910010490 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360910010491 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360910010494 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 360910010495 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 360910010496 carboxyltransferase (CT) interaction site; other site 360910010497 biotinylation site [posttranslational modification]; other site 360910010499 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 360910010500 Dehydroquinase class II; Region: DHquinase_II; pfam01220 360910010501 trimer interface [polypeptide binding]; other site 360910010502 active site 360910010503 dimer interface [polypeptide binding]; other site 360910010504 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 360910010505 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360910010506 catalytic residues [active] 360910010508 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 360910010509 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360910010510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360910010511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360910010512 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 360910010513 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360910010514 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 360910010515 RNB domain; Region: RNB; pfam00773 360910010516 Gram-negative bacterial tonB protein; Region: TonB; cl10048 360910010518 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 360910010519 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 360910010520 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 360910010521 shikimate binding site; other site 360910010522 NAD(P) binding site [chemical binding]; other site 360910010523 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 360910010524 Transglycosylase; Region: Transgly; cl17702 360910010525 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 360910010526 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360910010527 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 360910010528 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 360910010529 active site 360910010530 metal binding site [ion binding]; metal-binding site 360910010531 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360910010532 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360910010533 putative acyl-acceptor binding pocket; other site 360910010534 dihydroorotase; Provisional; Region: PRK07627 360910010535 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 360910010536 active site 360910010537 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360910010538 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 360910010539 hypothetical protein; Validated; Region: PRK00228 360910010540 Rubredoxin [Energy production and conversion]; Region: COG1773 360910010541 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 360910010542 iron binding site [ion binding]; other site 360910010544 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 360910010545 substrate binding site [chemical binding]; other site 360910010546 ATP binding site [chemical binding]; other site 360910010547 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 360910010548 thiamine phosphate binding site [chemical binding]; other site 360910010549 active site 360910010550 pyrophosphate binding site [ion binding]; other site 360910010551 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 360910010552 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 360910010553 inhibitor-cofactor binding pocket; inhibition site 360910010554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910010555 catalytic residue [active] 360910010557 Protein of unknown function (DUF342); Region: DUF342; pfam03961 360910010558 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 360910010559 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 360910010560 homotrimer interaction site [polypeptide binding]; other site 360910010561 putative active site [active] 360910010562 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 360910010563 active site 360910010564 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360910010565 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 360910010566 acyl-activating enzyme (AAE) consensus motif; other site 360910010567 AMP binding site [chemical binding]; other site 360910010568 active site 360910010569 CoA binding site [chemical binding]; other site 360910010571 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 360910010572 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360910010573 active site 360910010575 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 360910010576 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 360910010577 substrate binding site [chemical binding]; other site 360910010578 oxyanion hole (OAH) forming residues; other site 360910010579 trimer interface [polypeptide binding]; other site 360910010581 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360910010582 classical (c) SDRs; Region: SDR_c; cd05233 360910010583 NAD(P) binding site [chemical binding]; other site 360910010584 active site 360910010586 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 360910010587 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360910010588 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360910010589 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 360910010590 active site 360910010591 FMN binding site [chemical binding]; other site 360910010592 substrate binding site [chemical binding]; other site 360910010593 homotetramer interface [polypeptide binding]; other site 360910010594 catalytic residue [active] 360910010596 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360910010597 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360910010598 metal binding site [ion binding]; metal-binding site 360910010599 active site 360910010600 I-site; other site 360910010601 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 360910010602 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 360910010603 dimerization interface [polypeptide binding]; other site 360910010604 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 360910010605 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360910010606 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360910010607 Walker A/P-loop; other site 360910010608 ATP binding site [chemical binding]; other site 360910010609 Q-loop/lid; other site 360910010610 ABC transporter signature motif; other site 360910010611 Walker B; other site 360910010612 D-loop; other site 360910010613 H-loop/switch region; other site 360910010616 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360910010617 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360910010618 Walker A/P-loop; other site 360910010619 ATP binding site [chemical binding]; other site 360910010620 Q-loop/lid; other site 360910010621 ABC transporter signature motif; other site 360910010622 Walker B; other site 360910010623 D-loop; other site 360910010624 H-loop/switch region; other site 360910010626 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360910010627 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 360910010628 TM-ABC transporter signature motif; other site 360910010629 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 360910010630 TM-ABC transporter signature motif; other site 360910010631 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 360910010632 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 360910010633 putative ligand binding site [chemical binding]; other site 360910010634 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910010635 MarR family; Region: MarR; pfam01047 360910010637 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 360910010638 heterotetramer interface [polypeptide binding]; other site 360910010639 active site pocket [active] 360910010640 cleavage site 360910010641 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 360910010642 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910010643 Walker A motif; other site 360910010644 ATP binding site [chemical binding]; other site 360910010645 Walker B motif; other site 360910010647 hypothetical protein; Provisional; Region: PRK08999 360910010648 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 360910010649 active site 360910010650 8-oxo-dGMP binding site [chemical binding]; other site 360910010651 nudix motif; other site 360910010652 metal binding site [ion binding]; metal-binding site 360910010653 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 360910010654 active site 360910010655 thiamine phosphate binding site [chemical binding]; other site 360910010656 pyrophosphate binding site [ion binding]; other site 360910010658 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 360910010659 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360910010661 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 360910010662 Protein export membrane protein; Region: SecD_SecF; cl14618 360910010664 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 360910010665 Protein export membrane protein; Region: SecD_SecF; cl14618 360910010666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360910010667 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360910010668 HlyD family secretion protein; Region: HlyD_3; pfam13437 360910010669 hypothetical protein; Provisional; Region: PRK05287 360910010671 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 360910010672 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 360910010673 CoA-binding site [chemical binding]; other site 360910010674 ATP-binding [chemical binding]; other site 360910010676 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 360910010677 pantoate--beta-alanine ligase; Region: panC; TIGR00018 360910010678 Pantoate-beta-alanine ligase; Region: PanC; cd00560 360910010679 active site 360910010680 ATP-binding site [chemical binding]; other site 360910010681 pantoate-binding site; other site 360910010682 HXXH motif; other site 360910010683 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 360910010684 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 360910010685 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 360910010686 putative substrate translocation pore; other site 360910010687 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360910010688 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 360910010690 glycerol kinase; Provisional; Region: glpK; PRK00047 360910010691 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 360910010692 N- and C-terminal domain interface [polypeptide binding]; other site 360910010693 active site 360910010694 MgATP binding site [chemical binding]; other site 360910010695 catalytic site [active] 360910010696 metal binding site [ion binding]; metal-binding site 360910010697 glycerol binding site [chemical binding]; other site 360910010698 homotetramer interface [polypeptide binding]; other site 360910010699 homodimer interface [polypeptide binding]; other site 360910010700 FBP binding site [chemical binding]; other site 360910010701 protein IIAGlc interface [polypeptide binding]; other site 360910010704 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 360910010705 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910010706 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360910010707 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360910010708 Walker A/P-loop; other site 360910010709 ATP binding site [chemical binding]; other site 360910010710 Q-loop/lid; other site 360910010711 ABC transporter signature motif; other site 360910010712 Walker B; other site 360910010713 D-loop; other site 360910010714 H-loop/switch region; other site 360910010717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910010718 dimer interface [polypeptide binding]; other site 360910010719 conserved gate region; other site 360910010720 putative PBP binding loops; other site 360910010721 ABC-ATPase subunit interface; other site 360910010723 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 360910010724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 360910010725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910010726 dimer interface [polypeptide binding]; other site 360910010727 putative PBP binding loops; other site 360910010728 ABC-ATPase subunit interface; other site 360910010730 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 360910010731 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 360910010732 substrate binding pocket [chemical binding]; other site 360910010733 membrane-bound complex binding site; other site 360910010734 hinge residues; other site 360910010736 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 360910010737 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910010738 Walker A/P-loop; other site 360910010739 ATP binding site [chemical binding]; other site 360910010740 Q-loop/lid; other site 360910010741 ABC transporter signature motif; other site 360910010742 Walker B; other site 360910010743 D-loop; other site 360910010744 H-loop/switch region; other site 360910010747 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 360910010748 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 360910010749 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 360910010750 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 360910010751 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 360910010752 dimer interface [polypeptide binding]; other site 360910010753 PYR/PP interface [polypeptide binding]; other site 360910010754 TPP binding site [chemical binding]; other site 360910010755 substrate binding site [chemical binding]; other site 360910010756 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 360910010757 TPP-binding site [chemical binding]; other site 360910010758 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 360910010759 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 360910010760 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360910010761 minor groove reading motif; other site 360910010762 helix-hairpin-helix signature motif; other site 360910010763 substrate binding pocket [chemical binding]; other site 360910010764 active site 360910010765 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 360910010766 DNA binding and oxoG recognition site [nucleotide binding] 360910010767 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 360910010768 salt bridge; other site 360910010769 non-specific DNA binding site [nucleotide binding]; other site 360910010770 sequence-specific DNA binding site [nucleotide binding]; other site 360910010771 Insect allergen related repeat, nitrile-specifier detoxification; Region: Ins_allergen_rp; pfam06757 360910010772 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360910010773 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 360910010774 S-adenosylmethionine binding site [chemical binding]; other site 360910010775 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 360910010776 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 360910010777 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 360910010778 substrate binding pocket [chemical binding]; other site 360910010779 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 360910010780 B12 binding site [chemical binding]; other site 360910010781 cobalt ligand [ion binding]; other site 360910010782 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 360910010783 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 360910010784 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 360910010785 N-terminal plug; other site 360910010786 ligand-binding site [chemical binding]; other site 360910010787 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 360910010788 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 360910010789 cobalamin binding residues [chemical binding]; other site 360910010790 putative BtuC binding residues; other site 360910010791 dimer interface [polypeptide binding]; other site 360910010792 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 360910010793 ThiS interaction site; other site 360910010794 putative active site [active] 360910010795 tetramer interface [polypeptide binding]; other site 360910010796 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 360910010797 dimer interface [polypeptide binding]; other site 360910010798 substrate binding site [chemical binding]; other site 360910010799 ATP binding site [chemical binding]; other site 360910010800 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 360910010801 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 360910010802 S-adenosylmethionine binding site [chemical binding]; other site 360910010803 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 360910010804 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 360910010805 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 360910010806 active site 360910010807 nucleotide binding site [chemical binding]; other site 360910010808 HIGH motif; other site 360910010809 KMSKS motif; other site 360910010810 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 360910010811 dinuclear metal binding motif [ion binding]; other site 360910010812 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 360910010813 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 360910010815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 360910010816 SCP-2 sterol transfer family; Region: SCP2; pfam02036 360910010817 Low 4096C region. O-antigen modification and export locus 360910010818 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360910010819 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 360910010820 inhibitor-cofactor binding pocket; inhibition site 360910010821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910010822 catalytic residue [active] 360910010823 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360910010824 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 360910010825 putative trimer interface [polypeptide binding]; other site 360910010826 putative CoA binding site [chemical binding]; other site 360910010827 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 360910010828 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 360910010829 [2Fe-2S] cluster binding site [ion binding]; other site 360910010830 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 360910010831 alpha subunit interface [polypeptide binding]; other site 360910010832 active site 360910010833 substrate binding site [chemical binding]; other site 360910010834 Fe binding site [ion binding]; other site 360910010835 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 360910010836 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 360910010837 putative trimer interface [polypeptide binding]; other site 360910010838 putative CoA binding site [chemical binding]; other site 360910010840 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 360910010841 classical (c) SDRs; Region: SDR_c; cd05233 360910010842 NAD(P) binding site [chemical binding]; other site 360910010843 active site 360910010845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910010846 NAD(P) binding site [chemical binding]; other site 360910010847 active site 360910010848 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 360910010849 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 360910010850 dimer interface [polypeptide binding]; other site 360910010851 active site 360910010852 CoA binding pocket [chemical binding]; other site 360910010853 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 360910010854 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 360910010855 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 360910010856 Walker A/P-loop; other site 360910010857 ATP binding site [chemical binding]; other site 360910010858 Q-loop/lid; other site 360910010859 ABC transporter signature motif; other site 360910010860 Walker B; other site 360910010861 D-loop; other site 360910010862 H-loop/switch region; other site 360910010865 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 360910010866 ABC-2 type transporter; Region: ABC2_membrane; cl17235 360910010867 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 360910010868 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 360910010869 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 360910010870 S-adenosylmethionine binding site [chemical binding]; other site 360910010873 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 360910010874 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 360910010875 active site 360910010876 phosphorylation site [posttranslational modification] 360910010877 intermolecular recognition site; other site 360910010878 dimerization interface [polypeptide binding]; other site 360910010879 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 360910010880 DNA binding site [nucleotide binding] 360910010881 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 360910010882 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 360910010883 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 360910010884 dimer interface [polypeptide binding]; other site 360910010885 phosphorylation site [posttranslational modification] 360910010886 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 360910010887 ATP binding site [chemical binding]; other site 360910010888 G-X-G motif; other site 360910010889 Predicted metal-binding protein [General function prediction only]; Region: COG3019 360910010890 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 360910010891 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 360910010892 ligand binding site [chemical binding]; other site 360910010893 NAD binding site [chemical binding]; other site 360910010894 tetramer interface [polypeptide binding]; other site 360910010895 catalytic site [active] 360910010896 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 360910010897 L-serine binding site [chemical binding]; other site 360910010898 ACT domain interface; other site 360910010902 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910010903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910010904 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 360910010905 putative dimerization interface [polypeptide binding]; other site 360910010907 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_18; cd08357 360910010908 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 360910010909 putative metal binding site [ion binding]; other site 360910010910 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 360910010911 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 360910010912 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 360910010913 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 360910010914 putative active site [active] 360910010915 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 360910010916 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910010917 DNA-binding site [nucleotide binding]; DNA binding site 360910010918 FCD domain; Region: FCD; pfam07729 360910010920 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 360910010921 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 360910010922 FAD binding domain; Region: FAD_binding_4; pfam01565 360910010923 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 360910010924 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 360910010925 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 360910010926 Cysteine-rich domain; Region: CCG; pfam02754 360910010927 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 360910010930 Predicted membrane protein [Function unknown]; Region: COG1238 360910010931 threonine dehydratase; Reviewed; Region: PRK09224 360910010932 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 360910010933 tetramer interface [polypeptide binding]; other site 360910010934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910010935 catalytic residue [active] 360910010936 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 360910010937 putative Ile/Val binding site [chemical binding]; other site 360910010938 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 360910010939 putative Ile/Val binding site [chemical binding]; other site 360910010942 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 360910010943 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 360910010944 trimer interface [polypeptide binding]; other site 360910010945 eyelet of channel; other site 360910010946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910010947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910010948 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 360910010949 putative effector binding pocket; other site 360910010950 dimerization interface [polypeptide binding]; other site 360910010952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360910010953 active site 360910010955 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 360910010956 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360910010957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910010958 Walker A/P-loop; other site 360910010959 ATP binding site [chemical binding]; other site 360910010960 Q-loop/lid; other site 360910010961 ABC transporter signature motif; other site 360910010962 Walker B; other site 360910010963 D-loop; other site 360910010964 H-loop/switch region; other site 360910010967 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 360910010968 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360910010969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910010970 Walker A/P-loop; other site 360910010971 ATP binding site [chemical binding]; other site 360910010972 Q-loop/lid; other site 360910010973 ABC transporter signature motif; other site 360910010974 Walker B; other site 360910010975 D-loop; other site 360910010976 H-loop/switch region; other site 360910010979 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 360910010981 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 360910010982 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 360910010983 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 360910010984 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 360910010985 Predicted transcriptional regulators [Transcription]; Region: COG1510 360910010986 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 360910010987 dimerization interface [polypeptide binding]; other site 360910010988 putative DNA binding site [nucleotide binding]; other site 360910010989 putative Zn2+ binding site [ion binding]; other site 360910010990 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 360910010991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910010992 ATP-grasp domain; Region: ATP-grasp; pfam02222 360910010993 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 360910010994 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 360910010995 putative active site [active] 360910010996 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 360910010997 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 360910010998 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 360910010999 active site 360910011000 motif I; other site 360910011001 motif II; other site 360910011002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 360910011003 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 360910011004 OstA-like protein; Region: OstA; pfam03968 360910011005 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 360910011006 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 360910011007 Walker A/P-loop; other site 360910011008 ATP binding site [chemical binding]; other site 360910011009 Q-loop/lid; other site 360910011010 ABC transporter signature motif; other site 360910011011 Walker B; other site 360910011012 D-loop; other site 360910011013 H-loop/switch region; other site 360910011016 putative chaperone; Provisional; Region: PRK11678 360910011017 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 360910011018 nucleotide binding site [chemical binding]; other site 360910011019 putative NEF/HSP70 interaction site [polypeptide binding]; other site 360910011020 SBD interface [polypeptide binding]; other site 360910011023 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 360910011024 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 360910011025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910011026 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 360910011027 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 360910011028 DNA binding site [nucleotide binding] 360910011029 active site 360910011032 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 360910011033 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910011034 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 360910011035 dimerization interface [polypeptide binding]; other site 360910011037 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910011038 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360910011039 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 360910011040 metal binding site [ion binding]; metal-binding site 360910011041 putative dimer interface [polypeptide binding]; other site 360910011042 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360910011043 active site 360910011044 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 360910011045 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360910011046 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910011047 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360910011048 MarR family; Region: MarR_2; pfam12802 360910011049 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 360910011050 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360910011051 Walker A/P-loop; other site 360910011052 ATP binding site [chemical binding]; other site 360910011053 Q-loop/lid; other site 360910011054 ABC transporter signature motif; other site 360910011055 Walker B; other site 360910011056 D-loop; other site 360910011057 H-loop/switch region; other site 360910011060 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360910011061 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 360910011062 ABC-ATPase subunit interface; other site 360910011063 dimer interface [polypeptide binding]; other site 360910011064 putative PBP binding regions; other site 360910011065 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 360910011066 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360910011067 putative hemin binding site; other site 360910011068 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 360910011069 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 360910011070 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 360910011071 Secretin and TonB N terminus short domain; Region: STN; smart00965 360910011072 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360910011073 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 360910011074 N-terminal plug; other site 360910011075 ligand-binding site [chemical binding]; other site 360910011076 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 360910011077 FecR protein; Region: FecR; pfam04773 360910011078 RNA polymerase sigma factor; Provisional; Region: PRK12528 360910011079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360910011080 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910011081 DNA binding residues [nucleotide binding] 360910011082 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 360910011083 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 360910011084 structural tetrad; other site 360910011085 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 360910011086 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 360910011087 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 360910011088 NodB motif; other site 360910011089 active site 360910011090 catalytic site [active] 360910011091 metal binding site [ion binding]; metal-binding site 360910011093 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 360910011094 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 360910011095 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 360910011096 Uncharacterized conserved protein [Function unknown]; Region: COG5361 360910011097 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 360910011098 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 360910011099 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 360910011100 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 360910011101 [4Fe-4S] binding site [ion binding]; other site 360910011102 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360910011103 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360910011104 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 360910011105 molybdopterin cofactor binding site; other site 360910011110 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 360910011111 4Fe-4S binding domain; Region: Fer4; cl02805 360910011112 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 360910011114 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 360910011115 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360910011116 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 360910011117 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 360910011119 selenocysteine synthase; Provisional; Region: PRK04311 360910011120 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 360910011121 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 360910011122 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360910011123 catalytic residue [active] 360910011124 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 360910011125 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 360910011126 G1 box; other site 360910011127 putative GEF interaction site [polypeptide binding]; other site 360910011128 GTP/Mg2+ binding site [chemical binding]; other site 360910011129 Switch I region; other site 360910011130 G2 box; other site 360910011131 G3 box; other site 360910011132 Switch II region; other site 360910011133 G4 box; other site 360910011134 G5 box; other site 360910011135 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 360910011136 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 360910011137 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 360910011138 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 360910011141 selenophosphate synthetase; Provisional; Region: PRK00943 360910011142 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 360910011143 dimerization interface [polypeptide binding]; other site 360910011144 putative ATP binding site [chemical binding]; other site 360910011146 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 360910011147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910011148 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 360910011149 dimerization interface [polypeptide binding]; other site 360910011150 substrate binding pocket [chemical binding]; other site 360910011152 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360910011153 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 360910011154 putative catalytic residue [active] 360910011155 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 360910011156 active site 360910011157 ribulose/triose binding site [chemical binding]; other site 360910011158 phosphate binding site [ion binding]; other site 360910011159 substrate (anthranilate) binding pocket [chemical binding]; other site 360910011160 product (indole) binding pocket [chemical binding]; other site 360910011162 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 360910011163 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 360910011164 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 360910011165 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 360910011166 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 360910011167 glutamine binding [chemical binding]; other site 360910011168 catalytic triad [active] 360910011170 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 360910011171 30S subunit binding site; other site 360910011172 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 360910011173 active site 360910011174 phosphorylation site [posttranslational modification] 360910011176 HPr kinase/phosphorylase; Provisional; Region: PRK05428 360910011177 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 360910011178 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 360910011179 Hpr binding site; other site 360910011180 active site 360910011181 homohexamer subunit interaction site [polypeptide binding]; other site 360910011183 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 360910011184 AAA domain; Region: AAA_18; pfam13238 360910011186 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 360910011187 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 360910011188 Sporulation related domain; Region: SPOR; pfam05036 360910011190 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 360910011191 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 360910011192 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 360910011193 DNA binding site [nucleotide binding] 360910011194 active site 360910011196 Predicted methyltransferases [General function prediction only]; Region: COG0313 360910011197 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 360910011198 putative SAM binding site [chemical binding]; other site 360910011199 putative homodimer interface [polypeptide binding]; other site 360910011201 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 360910011202 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 360910011203 dimer interface [polypeptide binding]; other site 360910011204 active site 360910011205 outer membrane lipoprotein; Provisional; Region: PRK11023 360910011206 BON domain; Region: BON; pfam04972 360910011208 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 360910011209 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360910011210 catalytic residues [active] 360910011211 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360910011212 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360910011213 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 360910011214 feedback inhibition sensing region; other site 360910011215 homohexameric interface [polypeptide binding]; other site 360910011216 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 360910011217 nucleotide binding site [chemical binding]; other site 360910011218 N-acetyl-L-glutamate binding site [chemical binding]; other site 360910011219 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 360910011220 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 360910011221 motif II; other site 360910011222 division inhibitor protein; Provisional; Region: slmA; PRK09480 360910011223 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360910011224 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 360910011225 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 360910011226 transmembrane helices; other site 360910011227 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 360910011228 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 360910011230 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 360910011231 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360910011232 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360910011236 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 360910011237 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 360910011238 rod shape-determining protein MreC; Region: MreC; pfam04085 360910011239 rod shape-determining protein MreB; Provisional; Region: PRK13927 360910011240 MreB and similar proteins; Region: MreB_like; cd10225 360910011241 nucleotide binding site [chemical binding]; other site 360910011242 Mg binding site [ion binding]; other site 360910011243 putative protofilament interaction site [polypeptide binding]; other site 360910011244 RodZ interaction site [polypeptide binding]; other site 360910011245 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 360910011246 indole acetimide hydrolase; Validated; Region: PRK07488 360910011247 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 360910011249 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 360910011250 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 360910011251 GatB domain; Region: GatB_Yqey; smart00845 360910011253 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360910011254 active site 360910011256 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 360910011257 putative active site [active] 360910011258 putative catalytic site [active] 360910011259 putative DNA binding site [nucleotide binding]; other site 360910011260 putative phosphate binding site [ion binding]; other site 360910011261 metal binding site A [ion binding]; metal-binding site 360910011262 putative AP binding site [nucleotide binding]; other site 360910011263 putative metal binding site B [ion binding]; other site 360910011265 glutamate dehydrogenase; Provisional; Region: PRK09414 360910011266 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 360910011267 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 360910011268 NAD(P) binding site [chemical binding]; other site 360910011270 Predicted membrane protein [Function unknown]; Region: COG2860 360910011271 UPF0126 domain; Region: UPF0126; pfam03458 360910011272 UPF0126 domain; Region: UPF0126; pfam03458 360910011273 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 360910011274 Ligand Binding Site [chemical binding]; other site 360910011275 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 360910011276 Ligand Binding Site [chemical binding]; other site 360910011277 muropeptide transporter; Reviewed; Region: ampG; PRK11902 360910011278 muropeptide transporter; Validated; Region: ampG; cl17669 360910011279 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 360910011280 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 360910011281 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 360910011282 glutamate--cysteine ligase; Provisional; Region: PRK02107 360910011283 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 360910011285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910011286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910011287 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 360910011288 dimerization interface [polypeptide binding]; other site 360910011290 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 360910011291 dimer interface [polypeptide binding]; other site 360910011292 ligand binding site [chemical binding]; other site 360910011293 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 360910011294 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 360910011295 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 360910011296 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 360910011297 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 360910011298 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 360910011299 CoA-transferase family III; Region: CoA_transf_3; pfam02515 360910011300 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 360910011301 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360910011302 active site 360910011305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360910011306 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360910011307 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 360910011308 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 360910011309 FMN binding site [chemical binding]; other site 360910011310 substrate binding site [chemical binding]; other site 360910011311 putative catalytic residue [active] 360910011312 enoyl-CoA hydratase; Provisional; Region: PRK06688 360910011313 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 360910011314 substrate binding site [chemical binding]; other site 360910011315 oxyanion hole (OAH) forming residues; other site 360910011316 trimer interface [polypeptide binding]; other site 360910011317 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 360910011318 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 360910011319 substrate binding site [chemical binding]; other site 360910011320 oxyanion hole (OAH) forming residues; other site 360910011321 trimer interface [polypeptide binding]; other site 360910011323 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 360910011324 putative ATP binding site [chemical binding]; other site 360910011325 putative substrate binding site [chemical binding]; other site 360910011327 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 360910011328 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 360910011330 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910011331 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910011332 dimer interface [polypeptide binding]; other site 360910011333 conserved gate region; other site 360910011334 putative PBP binding loops; other site 360910011335 ABC-ATPase subunit interface; other site 360910011336 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 360910011337 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910011338 dimer interface [polypeptide binding]; other site 360910011339 conserved gate region; other site 360910011340 putative PBP binding loops; other site 360910011341 ABC-ATPase subunit interface; other site 360910011343 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 360910011344 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910011345 Walker A/P-loop; other site 360910011346 ATP binding site [chemical binding]; other site 360910011347 Q-loop/lid; other site 360910011348 ABC transporter signature motif; other site 360910011349 Walker B; other site 360910011350 D-loop; other site 360910011351 H-loop/switch region; other site 360910011352 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 360910011355 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 360910011356 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910011357 Walker A/P-loop; other site 360910011358 ATP binding site [chemical binding]; other site 360910011359 Q-loop/lid; other site 360910011360 ABC transporter signature motif; other site 360910011361 Walker B; other site 360910011362 D-loop; other site 360910011363 H-loop/switch region; other site 360910011364 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 360910011367 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 360910011368 glutamate carboxypeptidase; Reviewed; Region: PRK06133 360910011369 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 360910011370 metal binding site [ion binding]; metal-binding site 360910011371 dimer interface [polypeptide binding]; other site 360910011373 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 360910011374 Part of AAA domain; Region: AAA_19; pfam13245 360910011375 Family description; Region: UvrD_C_2; pfam13538 360910011377 primosome assembly protein PriA; Validated; Region: PRK05580 360910011378 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 360910011379 ATP binding site [chemical binding]; other site 360910011380 putative Mg++ binding site [ion binding]; other site 360910011381 helicase superfamily c-terminal domain; Region: HELICc; smart00490 360910011383 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 360910011384 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 360910011385 substrate binding site [chemical binding]; other site 360910011386 active site 360910011388 response regulator GlrR; Provisional; Region: PRK15115 360910011389 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 360910011390 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 360910011391 gamma subunit interface [polypeptide binding]; other site 360910011392 epsilon subunit interface [polypeptide binding]; other site 360910011393 LBP interface [polypeptide binding]; other site 360910011394 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 360910011395 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360910011396 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 360910011397 alpha subunit interaction interface [polypeptide binding]; other site 360910011398 Walker A motif; other site 360910011399 ATP binding site [chemical binding]; other site 360910011400 Walker B motif; other site 360910011401 inhibitor binding site; inhibition site 360910011402 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360910011405 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 360910011406 core domain interface [polypeptide binding]; other site 360910011407 delta subunit interface [polypeptide binding]; other site 360910011408 epsilon subunit interface [polypeptide binding]; other site 360910011410 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 360910011411 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360910011412 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 360910011413 beta subunit interaction interface [polypeptide binding]; other site 360910011414 Walker A motif; other site 360910011415 ATP binding site [chemical binding]; other site 360910011416 Walker B motif; other site 360910011417 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360910011420 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 360910011421 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 360910011422 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 360910011423 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 360910011424 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 360910011428 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 360910011429 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 360910011431 enoyl-CoA hydratase; Provisional; Region: PRK05862 360910011432 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 360910011433 substrate binding site [chemical binding]; other site 360910011434 oxyanion hole (OAH) forming residues; other site 360910011435 trimer interface [polypeptide binding]; other site 360910011437 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 360910011438 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 360910011439 PDZ domain; Region: PDZ_2; pfam13180 360910011440 protein binding site [polypeptide binding]; other site 360910011443 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 360910011444 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360910011446 Dihydroneopterin aldolase; Region: FolB; pfam02152 360910011447 active site 360910011448 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 360910011449 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 360910011450 Ligand Binding Site [chemical binding]; other site 360910011451 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 360910011452 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 360910011453 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 360910011454 dimerization interface [polypeptide binding]; other site 360910011455 NAD binding site [chemical binding]; other site 360910011456 ligand binding site [chemical binding]; other site 360910011457 catalytic site [active] 360910011459 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 360910011460 dimerization domain [polypeptide binding]; other site 360910011461 dimer interface [polypeptide binding]; other site 360910011462 catalytic residues [active] 360910011464 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 360910011465 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 360910011467 MltA specific insert domain; Region: MltA; smart00925 360910011468 3D domain; Region: 3D; pfam06725 360910011470 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 360910011471 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 360910011472 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 360910011473 substrate binding site [chemical binding]; other site 360910011474 hexamer interface [polypeptide binding]; other site 360910011475 metal binding site [ion binding]; metal-binding site 360910011478 phosphoglycolate phosphatase; Provisional; Region: PRK13222 360910011479 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 360910011480 motif II; other site 360910011481 anthranilate synthase component I; Provisional; Region: PRK13565 360910011482 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 360910011483 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 360910011484 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 360910011485 LexA regulated protein; Provisional; Region: PRK11675 360910011486 carbon starvation induced protein; Validated; Region: PRK02963 360910011487 substrate binding pocket [chemical binding]; other site 360910011488 active site 360910011489 iron coordination sites [ion binding]; other site 360910011490 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 360910011491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910011492 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 360910011493 dimerization interface [polypeptide binding]; other site 360910011494 substrate binding pocket [chemical binding]; other site 360910011496 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360910011497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360910011498 DNA-binding site [nucleotide binding]; DNA binding site 360910011499 FCD domain; Region: FCD; pfam07729 360910011502 dihydroxy-acid dehydratase; Validated; Region: PRK06131 360910011504 putative sialic acid transporter; Provisional; Region: PRK03893 360910011505 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 360910011506 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 360910011507 transmembrane helices; other site 360910011508 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 360910011509 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 360910011510 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 360910011511 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360910011512 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360910011513 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 360910011515 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360910011516 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360910011517 Cytochrome c; Region: Cytochrom_C; pfam00034 360910011521 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 360910011522 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 360910011523 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 360910011524 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910011525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910011526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910011527 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 360910011528 putative effector binding pocket; other site 360910011529 dimerization interface [polypeptide binding]; other site 360910011532 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360910011533 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 360910011534 Predicted oxidoreductase [General function prediction only]; Region: COG3573 360910011536 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360910011537 Isochorismatase family; Region: Isochorismatase; pfam00857 360910011538 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 360910011539 catalytic triad [active] 360910011540 conserved cis-peptide bond; other site 360910011541 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360910011542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910011543 NAD(P) binding site [chemical binding]; other site 360910011544 active site 360910011545 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 360910011546 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 360910011547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360910011548 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 360910011549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360910011550 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 360910011551 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 360910011552 Electron transfer flavoprotein domain; Region: ETF; pfam01012 360910011553 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 360910011554 Ligand Binding Site [chemical binding]; other site 360910011555 tricarballylate dehydrogenase; Validated; Region: PRK08274 360910011556 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 360910011557 Predicted oxidoreductase [General function prediction only]; Region: COG3573 360910011558 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 360910011559 Ligand binding site [chemical binding]; other site 360910011560 Electron transfer flavoprotein domain; Region: ETF; pfam01012 360910011562 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 360910011563 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 360910011564 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 360910011568 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 360910011570 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 360910011571 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 360910011572 tetramer interface [polypeptide binding]; other site 360910011573 active site 360910011574 Mg2+/Mn2+ binding site [ion binding]; other site 360910011575 Autotransporter beta-domain; Region: Autotransporter; pfam03797 360910011576 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 360910011577 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 360910011578 glutaminase active site [active] 360910011579 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 360910011580 dimer interface [polypeptide binding]; other site 360910011581 active site 360910011582 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 360910011583 dimer interface [polypeptide binding]; other site 360910011584 active site 360910011586 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910011587 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 360910011588 putative DNA binding site [nucleotide binding]; other site 360910011589 putative Zn2+ binding site [ion binding]; other site 360910011590 AsnC family; Region: AsnC_trans_reg; pfam01037 360910011591 LPS biosynthesis 360910011592 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360910011593 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 360910011594 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 360910011595 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360910011596 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 360910011598 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 360910011599 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 360910011600 putative substrate translocation pore; other site 360910011601 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 360910011602 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 360910011603 Substrate binding site; other site 360910011604 Mg++ binding site; other site 360910011605 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 360910011606 active site 360910011607 substrate binding site [chemical binding]; other site 360910011608 CoA binding site [chemical binding]; other site 360910011610 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 360910011611 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 360910011612 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360910011613 Cu(I) binding site [ion binding]; other site 360910011615 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 360910011616 UbiA prenyltransferase family; Region: UbiA; pfam01040 360910011618 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 360910011619 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 360910011620 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 360910011621 nudix motif; other site 360910011622 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 360910011623 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 360910011625 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 360910011626 active site 360910011627 metal binding site [ion binding]; metal-binding site 360910011628 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360910011629 hexamer interface [polypeptide binding]; other site 360910011630 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 360910011631 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 360910011632 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360910011633 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 360910011634 DNA binding residues [nucleotide binding] 360910011637 Domain of unknown function DUF302; Region: DUF302; cl01364 360910011640 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 360910011641 S-formylglutathione hydrolase; Region: PLN02442 360910011642 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 360910011643 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 360910011644 substrate binding site [chemical binding]; other site 360910011645 catalytic Zn binding site [ion binding]; other site 360910011646 NAD binding site [chemical binding]; other site 360910011647 structural Zn binding site [ion binding]; other site 360910011648 dimer interface [polypeptide binding]; other site 360910011650 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 360910011651 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 360910011652 active site 360910011653 dimer interface [polypeptide binding]; other site 360910011654 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 360910011655 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 360910011656 active site 360910011657 FMN binding site [chemical binding]; other site 360910011658 substrate binding site [chemical binding]; other site 360910011659 3Fe-4S cluster binding site [ion binding]; other site 360910011660 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 360910011661 domain interface; other site 360910011663 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 360910011664 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360910011665 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360910011666 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 360910011667 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 360910011668 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 360910011669 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 360910011670 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 360910011671 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360910011672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910011674 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 360910011675 Na binding site [ion binding]; other site 360910011676 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 360910011677 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 360910011678 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 360910011679 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 360910011680 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360910011681 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360910011682 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360910011685 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 360910011686 carboxyltransferase (CT) interaction site; other site 360910011687 biotinylation site [posttranslational modification]; other site 360910011688 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 360910011689 putative active site [active] 360910011690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910011691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910011692 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 360910011693 putative substrate binding pocket [chemical binding]; other site 360910011694 dimerization interface [polypeptide binding]; other site 360910011696 OmpW family; Region: OmpW; cl17427 360910011698 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 360910011699 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 360910011700 Walker A/P-loop; other site 360910011701 ATP binding site [chemical binding]; other site 360910011702 Q-loop/lid; other site 360910011703 ABC transporter signature motif; other site 360910011704 Walker B; other site 360910011705 D-loop; other site 360910011706 H-loop/switch region; other site 360910011709 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 360910011710 Permease; Region: Permease; pfam02405 360910011711 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 360910011712 mce related protein; Region: MCE; pfam02470 360910011713 VacJ like lipoprotein; Region: VacJ; cl01073 360910011715 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 360910011716 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 360910011717 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 360910011718 Walker A/P-loop; other site 360910011719 ATP binding site [chemical binding]; other site 360910011720 Q-loop/lid; other site 360910011721 ABC transporter signature motif; other site 360910011722 Walker B; other site 360910011723 D-loop; other site 360910011724 H-loop/switch region; other site 360910011727 ABC-2 type transporter; Region: ABC2_membrane; cl17235 360910011728 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 360910011729 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 360910011730 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 360910011731 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 360910011732 hinge; other site 360910011733 active site 360910011734 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 360910011735 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 360910011737 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 360910011738 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 360910011739 NAD binding site [chemical binding]; other site 360910011740 dimerization interface [polypeptide binding]; other site 360910011741 product binding site; other site 360910011742 substrate binding site [chemical binding]; other site 360910011743 zinc binding site [ion binding]; other site 360910011744 catalytic residues [active] 360910011745 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 360910011746 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 360910011747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910011748 homodimer interface [polypeptide binding]; other site 360910011749 catalytic residue [active] 360910011750 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 360910011751 putative active site pocket [active] 360910011752 4-fold oligomerization interface [polypeptide binding]; other site 360910011753 metal binding residues [ion binding]; metal-binding site 360910011754 3-fold/trimer interface [polypeptide binding]; other site 360910011757 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 360910011758 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 360910011759 putative active site [active] 360910011760 oxyanion strand; other site 360910011761 catalytic triad [active] 360910011763 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 360910011764 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 360910011765 catalytic residues [active] 360910011766 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 360910011767 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 360910011768 substrate binding site [chemical binding]; other site 360910011769 glutamase interaction surface [polypeptide binding]; other site 360910011770 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 360910011771 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 360910011772 metal binding site [ion binding]; metal-binding site 360910011773 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 360910011774 nucleotide binding site/active site [active] 360910011775 HIT family signature motif; other site 360910011776 catalytic residue [active] 360910011778 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 360910011779 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 360910011780 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 360910011781 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360910011782 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 360910011783 protein binding site [polypeptide binding]; other site 360910011784 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 360910011785 Uncharacterized conserved protein [Function unknown]; Region: COG0327 360910011786 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 360910011787 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 360910011788 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 360910011789 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 360910011790 [2Fe-2S] cluster binding site [ion binding]; other site 360910011793 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 360910011794 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 360910011795 Qi binding site; other site 360910011796 intrachain domain interface; other site 360910011797 interchain domain interface [polypeptide binding]; other site 360910011798 heme bH binding site [chemical binding]; other site 360910011799 heme bL binding site [chemical binding]; other site 360910011800 Qo binding site; other site 360910011801 interchain domain interface [polypeptide binding]; other site 360910011802 intrachain domain interface; other site 360910011803 Qi binding site; other site 360910011804 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 360910011805 Qo binding site; other site 360910011807 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 360910011809 stringent starvation protein A; Provisional; Region: sspA; PRK09481 360910011810 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 360910011811 C-terminal domain interface [polypeptide binding]; other site 360910011812 putative GSH binding site (G-site) [chemical binding]; other site 360910011813 dimer interface [polypeptide binding]; other site 360910011814 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 360910011815 dimer interface [polypeptide binding]; other site 360910011816 N-terminal domain interface [polypeptide binding]; other site 360910011817 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 360910011818 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 360910011819 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 360910011820 G1 box; other site 360910011821 GTP/Mg2+ binding site [chemical binding]; other site 360910011822 G2 box; other site 360910011823 Switch I region; other site 360910011824 G3 box; other site 360910011825 Switch II region; other site 360910011826 G4 box; other site 360910011827 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 360910011828 G5 box; other site 360910011830 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 360910011831 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 360910011832 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360910011833 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910011834 dimer interface [polypeptide binding]; other site 360910011835 conserved gate region; other site 360910011836 putative PBP binding loops; other site 360910011837 ABC-ATPase subunit interface; other site 360910011838 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 360910011839 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 360910011840 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910011841 dimer interface [polypeptide binding]; other site 360910011842 conserved gate region; other site 360910011843 putative PBP binding loops; other site 360910011844 ABC-ATPase subunit interface; other site 360910011846 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 360910011847 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910011848 Walker A/P-loop; other site 360910011849 ATP binding site [chemical binding]; other site 360910011850 Q-loop/lid; other site 360910011851 ABC transporter signature motif; other site 360910011852 Walker B; other site 360910011853 D-loop; other site 360910011854 H-loop/switch region; other site 360910011855 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 360910011856 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360910011857 Walker A/P-loop; other site 360910011858 ATP binding site [chemical binding]; other site 360910011859 Q-loop/lid; other site 360910011860 ABC transporter signature motif; other site 360910011861 Walker B; other site 360910011862 D-loop; other site 360910011863 H-loop/switch region; other site 360910011868 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 360910011869 Repair protein; Region: Repair_PSII; pfam04536 360910011870 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 360910011872 helicase 45; Provisional; Region: PTZ00424 360910011873 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 360910011874 ATP binding site [chemical binding]; other site 360910011875 Mg++ binding site [ion binding]; other site 360910011876 motif III; other site 360910011877 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 360910011878 nucleotide binding region [chemical binding]; other site 360910011879 ATP-binding site [chemical binding]; other site 360910011883 LysE type translocator; Region: LysE; cl00565 360910011884 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 360910011885 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 360910011886 G1 box; other site 360910011887 putative GEF interaction site [polypeptide binding]; other site 360910011888 GTP/Mg2+ binding site [chemical binding]; other site 360910011889 Switch I region; other site 360910011890 G2 box; other site 360910011891 G3 box; other site 360910011892 Switch II region; other site 360910011893 G4 box; other site 360910011894 G5 box; other site 360910011895 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 360910011897 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 360910011898 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 360910011899 heme binding site [chemical binding]; other site 360910011900 ferroxidase pore; other site 360910011901 ferroxidase diiron center [ion binding]; other site 360910011903 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 360910011904 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 360910011905 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 360910011906 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 360910011909 2-isopropylmalate synthase; Validated; Region: PRK03739 360910011910 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 360910011911 active site 360910011912 catalytic residues [active] 360910011913 metal binding site [ion binding]; metal-binding site 360910011914 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 360910011918 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 360910011919 Amidase; Region: Amidase; pfam01425 360910011921 Transcriptional regulators [Transcription]; Region: PurR; COG1609 360910011922 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 360910011923 DNA binding site [nucleotide binding] 360910011924 domain linker motif; other site 360910011925 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 360910011926 putative dimerization interface [polypeptide binding]; other site 360910011927 putative ligand binding site [chemical binding]; other site 360910011928 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 360910011929 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 360910011930 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 360910011931 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910011932 dimer interface [polypeptide binding]; other site 360910011933 conserved gate region; other site 360910011934 putative PBP binding loops; other site 360910011935 ABC-ATPase subunit interface; other site 360910011936 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 360910011937 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910011938 dimer interface [polypeptide binding]; other site 360910011939 conserved gate region; other site 360910011940 ABC-ATPase subunit interface; other site 360910011942 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 360910011943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360910011944 Walker A/P-loop; other site 360910011945 ATP binding site [chemical binding]; other site 360910011946 Q-loop/lid; other site 360910011947 ABC transporter signature motif; other site 360910011948 Walker B; other site 360910011949 D-loop; other site 360910011950 H-loop/switch region; other site 360910011953 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 360910011954 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360910011955 active site 360910011956 metal binding site [ion binding]; metal-binding site 360910011957 hexamer interface [polypeptide binding]; other site 360910011958 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 360910011959 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 360910011960 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 360910011961 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 360910011962 active site 360910011963 HIGH motif; other site 360910011964 KMSK motif region; other site 360910011965 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 360910011966 tRNA binding surface [nucleotide binding]; other site 360910011967 anticodon binding site; other site 360910011969 Sporulation related domain; Region: SPOR; pfam05036 360910011970 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 360910011971 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360910011972 catalytic residues [active] 360910011973 hinge region; other site 360910011974 alpha helical domain; other site 360910011976 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 360910011977 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 360910011978 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 360910011979 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 360910011980 homodimer interface [polypeptide binding]; other site 360910011981 substrate-cofactor binding pocket; other site 360910011982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910011983 catalytic residue [active] 360910011985 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360910011986 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 360910011987 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 360910011988 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 360910011989 DNA binding residues [nucleotide binding] 360910011990 putative dimer interface [polypeptide binding]; other site 360910011991 isovaleryl-CoA dehydrogenase; Region: PLN02519 360910011992 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 360910011993 substrate binding site [chemical binding]; other site 360910011994 FAD binding site [chemical binding]; other site 360910011995 catalytic base [active] 360910011998 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 360910011999 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 360910012000 dimer interface [polypeptide binding]; other site 360910012001 active site 360910012003 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 360910012004 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 360910012005 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360910012006 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360910012007 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360910012008 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 360910012009 carboxyltransferase (CT) interaction site; other site 360910012010 biotinylation site [posttranslational modification]; other site 360910012014 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 360910012015 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 360910012016 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 360910012017 inhibitor-cofactor binding pocket; inhibition site 360910012018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910012019 catalytic residue [active] 360910012021 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 360910012022 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 360910012023 active site 360910012024 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360910012025 dimer interface [polypeptide binding]; other site 360910012026 substrate binding site [chemical binding]; other site 360910012027 catalytic residue [active] 360910012028 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360910012029 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 360910012030 N-terminal plug; other site 360910012031 ligand-binding site [chemical binding]; other site 360910012033 Protein of unknown function (DUF494); Region: DUF494; pfam04361 360910012034 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 360910012035 active site 360910012036 HIGH motif; other site 360910012037 nucleotide binding site [chemical binding]; other site 360910012038 active site 360910012039 KMSKS motif; other site 360910012040 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 360910012041 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 360910012042 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 360910012043 DNA topoisomerase III; Validated; Region: PRK08173 360910012044 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 360910012045 active site 360910012046 putative interdomain interaction site [polypeptide binding]; other site 360910012047 putative metal-binding site [ion binding]; other site 360910012048 putative nucleotide binding site [chemical binding]; other site 360910012049 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 360910012050 domain I; other site 360910012051 DNA binding groove [nucleotide binding] 360910012052 phosphate binding site [ion binding]; other site 360910012053 domain II; other site 360910012054 domain III; other site 360910012055 nucleotide binding site [chemical binding]; other site 360910012056 catalytic site [active] 360910012057 domain IV; other site 360910012058 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 360910012059 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 360910012061 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 360910012062 NMT1/THI5 like; Region: NMT1; pfam09084 360910012063 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360910012064 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 360910012065 Walker A/P-loop; other site 360910012066 ATP binding site [chemical binding]; other site 360910012067 Q-loop/lid; other site 360910012068 ABC transporter signature motif; other site 360910012069 Walker B; other site 360910012070 D-loop; other site 360910012071 H-loop/switch region; other site 360910012074 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360910012075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 360910012076 dimer interface [polypeptide binding]; other site 360910012077 conserved gate region; other site 360910012078 putative PBP binding loops; other site 360910012079 ABC-ATPase subunit interface; other site 360910012080 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 360910012081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360910012082 NAD(P) binding site [chemical binding]; other site 360910012083 active site 360910012085 aldehyde dehydrogenase (pseudogene) 360910012088 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 360910012089 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 360910012090 putative NAD(P) binding site [chemical binding]; other site 360910012091 active site 360910012093 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 360910012094 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360910012095 PYR/PP interface [polypeptide binding]; other site 360910012096 dimer interface [polypeptide binding]; other site 360910012097 TPP binding site [chemical binding]; other site 360910012098 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360910012099 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 360910012100 TPP-binding site [chemical binding]; other site 360910012101 dimer interface [polypeptide binding]; other site 360910012103 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360910012104 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 360910012105 putative DNA binding site [nucleotide binding]; other site 360910012106 putative Zn2+ binding site [ion binding]; other site 360910012107 AsnC family; Region: AsnC_trans_reg; pfam01037 360910012109 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 360910012110 Proteins containing SET domain [General function prediction only]; Region: COG2940 360910012111 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 360910012112 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK00014 360910012113 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 360910012115 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 360910012116 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 360910012117 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 360910012118 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 360910012119 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 360910012120 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 360910012121 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 360910012122 putative ligand binding site [chemical binding]; other site 360910012123 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 360910012124 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 360910012125 Walker A/P-loop; other site 360910012126 ATP binding site [chemical binding]; other site 360910012127 Q-loop/lid; other site 360910012128 ABC transporter signature motif; other site 360910012129 Walker B; other site 360910012130 D-loop; other site 360910012131 H-loop/switch region; other site 360910012132 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 360910012136 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 360910012137 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910012138 TM-ABC transporter signature motif; other site 360910012139 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360910012140 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 360910012141 TM-ABC transporter signature motif; other site 360910012142 cytosine deaminase; Validated; Region: PRK07572 360910012143 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 360910012144 active site 360910012146 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360910012147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360910012148 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 360910012150 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 360910012151 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 360910012152 active site 360910012153 substrate binding site [chemical binding]; other site 360910012154 FMN binding site [chemical binding]; other site 360910012155 putative catalytic residues [active] 360910012157 acylphosphatase; Provisional; Region: PRK14424 360910012159 Cytochrome c; Region: Cytochrom_C; pfam00034 360910012160 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360910012161 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360910012162 Cytochrome c; Region: Cytochrom_C; pfam00034 360910012165 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 360910012167 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 360910012168 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910012169 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 360910012170 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 360910012171 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 360910012172 Ligand binding site; other site 360910012173 metal-binding site 360910012174 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 360910012175 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 360910012176 XdhC Rossmann domain; Region: XdhC_C; pfam13478 360910012177 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 360910012179 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 360910012180 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 360910012181 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910012182 Walker A motif; other site 360910012183 ATP binding site [chemical binding]; other site 360910012184 Walker B motif; other site 360910012185 arginine finger; other site 360910012188 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 360910012189 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 360910012190 ATP binding site [chemical binding]; other site 360910012191 Mg2+ binding site [ion binding]; other site 360910012192 G-X-G motif; other site 360910012193 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 360910012194 anchoring element; other site 360910012195 dimer interface [polypeptide binding]; other site 360910012196 ATP binding site [chemical binding]; other site 360910012197 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 360910012198 active site 360910012199 putative metal-binding site [ion binding]; other site 360910012200 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360910012202 DNA polymerase III subunit beta; Validated; Region: PRK05643 360910012203 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 360910012204 putative DNA binding surface [nucleotide binding]; other site 360910012205 dimer interface [polypeptide binding]; other site 360910012206 beta-clamp/clamp loader binding surface; other site 360910012207 beta-clamp/translesion DNA polymerase binding surface; other site 360910012209 DnaA N-terminal domain; Region: DnaA_N; pfam11638 360910012210 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 360910012211 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 360910012212 Walker A motif; other site 360910012213 ATP binding site [chemical binding]; other site 360910012214 Walker B motif; other site 360910012215 arginine finger; other site 360910012216 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 360910012217 DnaA box-binding interface [nucleotide binding]; other site 360910012220 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 360910012222 ribonuclease P; Reviewed; Region: rnpA; PRK00038 360910012223 Haemolytic domain; Region: Haemolytic; pfam01809 360910012224 membrane protein insertase; Provisional; Region: PRK01318 360910012225 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 360910012226 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 360910012227 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 360910012228 dimer interface [polypeptide binding]; other site 360910012229 active site 360910012230 heme binding site [chemical binding]; other site 360910012231 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 360910012236 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360910012237 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 360910012238 metal binding site [ion binding]; metal-binding site 360910012239 putative dimer interface [polypeptide binding]; other site 360910012240 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 360910012241 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 360910012242 trmE is a tRNA modification GTPase; Region: trmE; cd04164 360910012243 G1 box; other site 360910012244 GTP/Mg2+ binding site [chemical binding]; other site 360910012245 Switch I region; other site 360910012246 G2 box; other site 360910012247 Switch II region; other site 360910012248 G3 box; other site 360910012249 G4 box; other site 360910012250 G5 box; other site 360910012251 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 360910012253 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 360910012254 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 360910012255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360910012256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360910012257 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 360910012258 dimerization interface [polypeptide binding]; other site 360910012260 malic enzyme; Reviewed; Region: PRK12861 360910012261 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360910012262 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360910012263 putative NAD(P) binding site [chemical binding]; other site 360910012264 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 360910012266 methionine aminotransferase; Validated; Region: PRK09082 360910012267 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 360910012268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360910012269 homodimer interface [polypeptide binding]; other site 360910012270 catalytic residue [active] 360910012271 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 360910012272 DNA-binding site [nucleotide binding]; DNA binding site 360910012273 RNA-binding motif; other site